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Our Team

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Joshua Adelman
Joshua Adelman is a computational biophysicist who uses modeling and simulation to understand how proteins move small molecules across the cell membrane. He is one of the core developers of the open source, Weighted Ensemble Simulation Toolkit (WESTPA) and spends most of his days building computational tools and crunching data for the good of science using python. He received his Ph.D. in Biophysics at the University of California, Berkeley and is currently a Research Assistant Professor in the Department of Biological Sciences at the University of Pittsburgh.
Aron Ahmadia
Aron Ahmadia works at the intersection of applied mathematics, software engineering, and application domains as diverse as adaptive optics, semiconductor lithography, and ice-sheet modeling. His focus is in the collaborative development of robust, reproducible, and scalable software tools for computational science.
Matthew Aiello-Lammens
Matthew Aiello-Lammens is an ecologists currently working as a postdoc at the University of Connecticut. His research interests include conservation biology, invasion biology, community ecology, and quantitative ecology. When not doing research, he spends time with his wife and daughter, preferably out in the woods.
Joshua Ainsley
Joshua Ainsley is a Data Scientist at Fino Consulting in NYC, where he applies statistical and machine learning approaches to projects in the education and energy sectors. Previously, he was a postdoc at Tufts University where he performed neuroscience research aimed at better understanding learning and memory using high throughput RNA sequencing. As someone who had to slowly gain programming skills to understand the large biological data sets generated by his research, he is excited to make the process a bit easier for others.
Harriet Alexander
Harriet Alexander is a PhD student in the MIT/Woods Hole Oceanographic Institution Joint Program in Biological Oceanography. Her work focuses on using high-throughput sequence data to better understanding the nutritional physiology and biogeochemical role of marine phytoplankton.
Russell Alleen-Willems
Russell Alleen-Willems holds an MA in applied archaeology and specializes in archiving and disseminating digital archaeological data and information. He is interested in helping people learn about archaeology, as well as how to use software, including databases, analytical programs, and games, to better analyze, present, share, and interpret archaeology in academia, cultural resource management, and public education.
James Allen
James Allen holds a PhD in theoretical physics from Durham University where he modelled the dynamics of solitons on 4 dimension membranes in string theory. He is currently working as the co-founder of ShareLaTeX, which is an online collaborative LaTeX editor for scientists. He is interested in how technology can make scientists more efficient, and more productive.
Pete Alonzi
Pete Alonzi is a native of Chicago, but now resident in Virginia. He was always interested in science so he wound up becoming a full time researcher in particle physics, and has recently transitioned to the field of data science.
Areej Alsheikh-Hussain
Areej Alsheikh-Hussain is a PhD student at the University of Queensland working on vaccine target identification from the genomes of Streptococcal fish pathogens. Coming from two backgrounds, computer science and marine biology, she's interested in helping biologists utilize computing power to facilitate their research.
Carlos Anderson
Carlos Anderson is a software developer at the University of Michigan Health System, where he collaborates with researchers in radiation therapy in order to improve cancer treatments. He obtained a Ph.D. in Evolutionary Biology (Michigan State University), an M.S. in Biology, and a B.S. in Computer Science (University of Central Florida).
Catalina Anghel
Catalina Anghel is a postdoctoral fellow at the Ontario Institute for Cancer Research, working on computational deconvolution of tumour gene expression profiles. She received her Ph.D. in mathematics from the University of Toronto.
Mario Antonioletti
Mario Antonioletti works on optimising and parallelising codes for high performance computing systems. He has become involved in Software Carpentry through the UK's Software Sustainability Institute.
Jorge Aranda
Jorge Aranda obtained his Ph.D. in Computer Science at the University of Toronto. He is now a postdoctoral researcher at the University of Victoria, where he studies coordination and communication in software teams.
Dhavide Aruliah
Dhavide Aruliah is an associate professor at the University of Ontario Institute of Technology in Oshawa, Ontario. His research interests are in scientific computing, specifically in computational inverse problems, numerical linear algebra, and the numerical solution of PDEs.
Camille Avestruz
Camille Avestruz is a PhD candidate and NSF Graduate Research Fellow in the Physics Department at Yale University. She uses numerical simulations to study clusters of galaxies. In particular, she is interested in using simulations to interpret observations and to model astrophysical processes. Camille is also active in a number of outreach activities and is committed to promoting diversity in STEM fields. She's been an instructor with Software Carpentry since 2013, and is excited to share programming skills with an increasingly wider audience.
Liaison: Diversity Initiatives
Sung Bae
Sung Eun Bae works at New Zealand eScience Infrastructure (NeSI) as a supercomputing consultant, supporting NZ researchers to utilize HPC resources to challenge bigger science. He also serves as NeSI's education and training coordinator organizing/delivering scientific programming workshops across NZ. He received his Ph.D in algorithm and data structure at the University of Canterbury. He is a real "carpenter" busy with his woodwork projects during the weekends.
Christie Bahlai
Christie Bahlai is a Research Associate in the Department of Entomology at Michigan State University in East Lansing, Michigan, where she studies long term and broad scale population and community ecology of insects. She's interested in collaboratively generated data and reproducible research and maintains a blog called Practical Data Management for Bug Counters. She obtained her PhD in Environmental Biology from the University of Guelph.
Piotr Banaszkiewicz
Piotr Banaszkiewicz studies automatics control and robotics at AGH-UST in Kraków, Poland. Student by day, programmer by night, he loves Python. Even though half of his curriculum is Matlab-based.
Pauline Barmby
Pauline Barmby is an associate professor in the Department of Physics & Astronomy at Western University in London, Canada. She studies star formation and star clusters in nearby galaxies with as many telescopes as she can get her hands on, and teaches introductory electromagnetism, data analysis, and even astrophysics.
Diego Barneche
Diego Barneche is a Ph.D. candidate in Macroecology at Macquarie University who is passionate about global patterns of diversity, macroevolution, and statistical and mathematical modelling. He loves learning and teaching programming skills for science.
Ewan Barr
Ewan Barr is a postdoctoral researcher at Swinburne University of Technology in Melbourne. His research revolve around radio astronomy, pulsar science, and high-performance supercomputing, with a focus on adapting complex radio astronomy algorithms to run on graphics processors. This has led him to become heavily involved in the design and development of the next-generation Square Kilometre Array (SKA) radio telescope.
Radovan Bast
Radovan Bast is a researcher in computational chemistry at the KTH Royal Institute of Technology and application expert at the PDC Center for High Performance Computing (both Stockholm). His work evolves around developing and supporting quantum chemistry software. He is interested in using, sharing, and teaching modern collaborative development tools and work-flows.
Dana Bauer
Dana Bauer is a developer and open source community advocate at Rackspace. Her team sponsors OSS projects and open communities, teaches workshops and gives talks to a wide range of technical audiences, and builds tools to help developers use the open cloud. Dana is also an organizer with the Philadelphia Python User Group, an instructor with Girl Develop It, and a passionate supporter of diverse technical communities. She has a background in geography, science (chemistry and math), and science writing.
Philipp Bayer
Philipp Bayer is a PhD student at the School of Agriculture and Food Sciences, University of Queensland. He's working on the improvement of plant genomes and is interested in open code and open science. He is one of the co-founders of openSNP.org.
Rob Beagrie
Rob Beagrie is a PhD student at Imperial College in London. He works on regulatory DNA (e.g. enhancers) in mammalian genomes, and is particularly interested in how the physical contacts they make with distant genomic regions may regulate the expression of genes.
Trevor Bekolay
Trevor Bekolay is a PhD student at the University of Waterloo, where he uses computers to build models of the brain. He is interested in how the type of learning that happens at Software Carpentry workshops translates to the changes that happen in the brain.
Maintainer: Programming with Python
Mahdi Belcaid
Mahdi Belcaid obtained his undergraduate degree from the University of Quebec at Montreal and his Ph.D in Computer Science from the University of Hawaii At Manoa. He currently works as a Bioinformatics Core leader and an assistant research professor at the Hawaii Institute of Marine Biology. He teaches computational skills and bioinformatics to graduate students and his research focuses on algorithms for analyzing high-throughput biological data in various subfields of biology.
Nichole Bennett
Nichole Bennett is a Ph.D. candidate in Ecology, Evolution, and Behavior at The University of Texas at Austin, where she is studying climate change impacts by investigating local adaptation and thermal biology in a butterfly-plant system. During fall semesters, she organizes a weekly informal Introduction to Biological Statistics Course. She also hosts a weekly science radio show They Blinded Me With Science on 91.7FM KVRX Austin and coordinates Science Under the Stars, a free, outdoor lecture series that helps graduate students communicate their research to the public.
Lukas Blakk
Lukas Blakk is a tech generalist with a degree in Software Development from Seneca College in Toronto. She’s the founder of the Ascend Project which aims to help marginalized adults gain access to tech skills through a barrier-removing accelerator program in open source contribution. Lukas has big plans for creating software companies that are worker cooperatives and designed from the start with diversity and inclusiveness in their DNA.
John Blischak
John Blischak is a graduate student at the University of Chicago. His research focuses on the transcriptional response of human macrophages to infection by Mycobacterium tuberculosis. He greatly benefited from attending a Software Carpentry bootcamp and enjoys passing along these useful skills to other scientists.
Maintainer: Programming with R
Carl Boettiger
Carl Boettiger is an NSF post-doctoral researcher at UC Santa Cruz, working on prediction and management of ecological regime shifts. He is a founding member of rOpenSci and keeps an open lab notebook.
Jessica Bonnie
Jessica Bonnie is a Data Specialist at the University of Virginia Center for Public Health Genomics where she works with large-scale genomic data primarily focused in autoimmune disease research. She is fascinated by automation and enjoys finding ways to make things work.
James Boocock
James Boocock is a Masters candidate in Genetics at the University of Otago. He investigates genetic variation, in particular deletions and insertions, focusing on questions of relevance to the medical and agricultural sectors. Having begun his studies with BSc in computer science, most of his research involves programming. He hopes Software Carpentry will enable him to share his passion and programming skills with a wide audience.
Azalee Bostroem
Azalee Bostroem is pursing a PhD in Physics at UC Davis. When she is not in class or doing homework, she studies supernovae and massive stars. Before returning to school, Azalee was a Senior Research and Instrument Analyst at the Space Telescope Science Institute, where she supervised the development of the calibration pipelines of the two spectrographs on the Hubble Space Telescope (the Cosmic Origins Spectrograph and Space Telescope Imaging Spectrograph).
Maintainer: Programming with Python
Andrew Boughton
Andrew Boughton earned his Ph.D. in Chemistry from the University of Michigan in 2011. From running simulations and writing software to automate data collection and analysis, he has since contributed to a range of projects in image processing, machine learning, and the DARPA AVM program. He is passionate about open science, open data, and reproducible research, as well as good software design and teaching.
Maintainer: tools
Amy Boyle
Amy Boyle is a software developer at Washington State University Vancouver, where she writes code for auditory neuroscience research. She designs and implements programs for data acquisition, analysis and visualization. She is also an organizer for the Portland Pyladies chapter.
Erik Bray
Erik Bray is a software engineer in the science software branch at Space Telescope Science Institute, where he works primarily on supporting Hubble and JWST science software. His software experience ranges from web development to kernel hacking, and in his "free" time he's working on an MS in Applied Physics.
Karl Broman
Karl Broman is Professor in the Department of Biostatistics and Medical Informatics at the University of Wisconsin-Madison. An applied statistician focusing on problems in genetics and genomics, he enjoys programmming in R, Ruby, C/C++, and CoffeeScript, and is an enthusiastic advocate for open and reproducible science as well as GNU Make.
Amy Brown
Amy Brown is a freelance science editor and self-publishing consultant, raises two girls, and sings as often as possible.
C. Titus Brown
C. Titus Brown @ctitusbrown is an Associate Professor in the School of Veterinary Medicine at University of California, Davis, where he works on data-intensive biology. He blogs regularly about open science, software development, and his other interests.
Advisory Council
Jennifer Bryan
Jennifer Bryan is an Associate Professor in the Statistics Department and the Michael Smith Laboratories at the University of British Columbia in Vancouver. She's a biostatistician specialized in genomics and takes a special interest and delight in data analysis and statistical computing. Jenny is a former member of the Software Carpentry Foundation's Steering Committee.
Scott Burns
Scott Burns hacks on healthcare data at Stratasan. In a previous life, he developed large-scale neuroimaging infrastructure to study reading disabilities in children.
Abigail Cabunoc
Abigail Cabunoc is the lead developer for the Mozilla Science Lab, an open science initiative of the Mozilla Foundation and Software Carpentry Foundation partner. Prior to joining Mozilla, Abby worked as a software developer at the Ontario Institute for Cancer Research where she was the technical lead on the WormBase website.
Maintainer: Using Databases and SQL
Jared Camins-Esakov
Jared Camins-Esakov is a programmer and bibliographer, coding catalogues and occasionally cataloguing source code. He currently works as a front-end developer in the healthcare sector; when not programming, he spends his time baking and ballroom dancing.
Rosangela Canino-Koning
After 13 years of slogging in the software industry trenches, Rosangela Canino-Koning returned to university to pursue a PhD in Computer Science and Evolutionary Biology at Michigan State University. In her copious spare time, she reads, hikes, travels, and hacks on open source software.
Chris Cannam
Chris Cannam is a software developer with the Sound Software project at Queen Mary, University of London. He has had extensive experience as a commercial software developer and on numerous open source applications, particularly in the music and audio fields.
Greg Caporaso
Greg Caporaso is an assistant professor of Biologial Sciences at Northern Arizona University, and an open source bioinformatics software developer. Greg leads development of the scikit-bio and QIIME bioinformatics software packages, and is the primary author of An Introduction to Applied Bioinformatics, an open source, interactive bioinformatics text. For more details, see the Caporaso Lab website.
Tim Cerino
Tim Cerino is the founder of Avery Analytics, a consulting firm focused on data science applications and education for economics, financial institutions, and enterprise risk management. He has worked in the capital markets industry and as an economic researcher. He has an MBA in Finance and an MA in Statistics and Data Science from Columbia University.
Scott Chamberlain
Scott Chamberlain is an ecologist at Simon Fraser University, and co-founder of rOpenSci, a project which aims to foster reproducible research and data reuse through open source software tools.
Cliburn Chan
Cliburn Chan is a computational immunologist at Duke University whose research interests center around statistical analysis of immunological data and building dynamical systems models of the immune response. Originally trained as a medical doctor, he caught the math bug and eventually completed a PhD in nonlinear dynamics at University College London. He teaches how to integrate biomedical knowledge with the statistical perspective in the Masters program in Biostatistics and is currently developing a new graduate course in computational statistics that will be introduced in Spring 2015.
Amanda Charbonneau
Amanda Charbonneau is a Genetics grad student at Michigan State University. Her PhD project uses genomics to look for genetic differences between weedy plants and their presumed ancestors, to see what genes are important in becoming invasive. When she isn't working, you can find her teaching high school students science or wrangling birds of prey, generally not at the same time.
Daniel Chen
Daniel Chen (@chendaniely) is a doctoral student in Genetics, Bioinformatics, and Computational Biology at Virginia Tech and currently working in the Social and Decision Analytics Laboratory under the Virginia Bioinformatics Institute. He received his MPH at the Mailman School of Public Health in Epidemiology and is interested in integrating hospital data in order to perform predictive health analytics and build clinical support tools for clinicians.
Chelsea Chisholm
Chelsea Chisholm is a Ph.D. student with the Center for Macroecology, Evolution and Climate in Copenhagen, Denmark. Her research focuses on understanding the assembly of ecological communities, mainly forests, from local to macro scales. On top of teaching introductory R workshops and statistics for biologists, she is an active supporter of open science and diversity in STEM.
Shreyas Cholia
Shreyas Cholia is the deputy group leader of the Data and Analytics Services Group at the NERSC facility of Lawrence Berkeley National Laboratory. He leads the science gateway, web and workflow related efforts at NERSC, and is particularly interested in how web APIs and tools can facilitate data-centric computing. He studied Computer Science and Cognitive Sciences at Rice University.
Advisory Council
Adina Chuang Howe
Adina Chuang Howe is an assistant professor in the Department of Agricultural and Biosystems Engineering at Iowa State University, where she uses skills learned from Software Carpentry to train students and study microbial communities in the environment.
Steering Committee
Neil Chue Hong
Neil Chue Hong is Director of the Software Sustainability Institute, and is based at the University of Edinburgh. His research interests are in community engagement and development, software sustainability, and the integration and analysis of data.
Advisory Council
Sophie Clayton
Sophie Clayton is an oceanographer at the University of Washington who explores the ways in which ocean physics shape plankton communities. She received her PhD in Oceanography from the MIT/WHOI Joint Program, and wishes that she had taken a Software Carpentry workshop before accumulating endless folders of creatively-titled MATLAB scripts.
Warren Code
Warren Code is Associate Director of the Science Centre for Learning and Teaching in the Faculty of Science at the University of British Columbia, with a key responsibility being coordination and leadership of the Carl Wieman Science Education Initiative, whose mission is to improve science education at UBC and disseminating results for others. He has built on his PhD in Mathematics and the teaching from that time to pursue undergraduate math and science education research and its implications for teaching and learning.
Luis Pedro Coelho
Luis Pedro Coelho is a postdoc in computational biology at the European Molecular Biology Laboratory (EMBL). He is working on understanding microbial communities using metagenomics and bioimage analysis. Luis divides his time between Heidelberg and Luxembourg.
Ruth Collings
Ruth Collings is a MLIS graduate interested in web design, digital privacy and security issues, and accessibility and universal design in libraries.
Arliss Collins
Arliss Collins is the training coordinator for the Mozilla Science Lab, an open science initiative of the Mozilla Foundation and Software Carpentry Foundation partner. She was educated as a geophysical engineer, re-trained as a business/systems analyst, and now works on educational activities and trainings for Mozilla, including Software Carpentry workshops globally. She is a Canadian mother of two with a long-standing passion for curling.
John Corless
John Corless is an industrial physicist and engineering manager who works on the development of optical systems. He has a PhD in Optics from the University of Rochester and an MBA from the University of San Francisco.
Marianne Corvellec
Marianne Corvellec has a PhD in Physics from Ecole Normale Supérieure de Lyon (Lyon, France). She left academia in 2013 to work in the startup scene. She is now a scientific software developer with Plotly.
Thomas Coudrat
Thomas Coudrat is a PhD candidate at the Monash Institute of Pharmaceutical Sciences in Melbourne, Australia. He is involved in drug discovery programs where he applies molecular modeling simulations to predict protein structure, dynamics and interaction with potential drugs. His time is split between method development, method application and research community engagement.
Logan Cox
Logan Cox is a software developer for Repository Services at the University of Oklahoma Libraries. His professional focus is building tools for wrangling content, and he loves working at the intersection between books and the modern web.
Stefano Cozzini
Stefano Cozzini, based in Trieste, is a development scientist who coordinates HPC/Cloud activities of the CNR/IOM Democritos research Center. He is now also coordinator of the Master's in High Performance Computing, and is working hard on his small start-up company, where he tries to promote HPC to an industrial audience. He enjoy teaching IT and HPC topics all around the world.
Karen Cranston
Karen Cranston is the Training Coordinator and Informatics Project Manager at the National Evolutionary Synthesis Center (NESCent). She is an evolutionary biologist interested in phylogenetic methods, phyloinformatics and an evangelist for data sharing and data interoperability in biology. Karen is the lead PI of Open Tree of Life, an NSF-funded project to synthesize published evolutionary trees.
Steve Crouch
Steve Crouch is a software architect at the Software Sustainability Institute, and is based at the University of Southampton. He assists researchers and their communities by consulting on software that is integral to their research.
Michael R. Crusoe
Michael R. Crusoe is a staff software engineer in the department of Microbiology and Molecular genetics at Michigan State University where he is the lead on C. Titus Brown's khmer project. He is a passionate advocate for the open science workstyle and the removal of barriers to participation and access to the scientific process and community.
Remi Daigle
Remi Daigle is a marine ecologist interested in larval ecology, ocean health, and the design of marine protected areas. He is currently a postdoc at the University of Toronto and McGill focusing on the optimization of networks of marine protected areas for sea cucumbers on Canada’s west coast using biophysical larval dispersal modelling and MARXAN. He is also involved in developing the Ocean Health Index in Canada.
Harriet Dashnow
Harriet Dashnow is a bioinformatician and PhD candidate at the University of Melbourne and the Murdoch Children’s Research Institute. Harriet has a BA (Psychology), a BSc (Genetics and Biochemistry) and an MSc (Bioinformatics) from the University of Melbourne. Harriet is committed to serving the bioinformatics community through organisations such as COMBINE. She has substantial experience in teaching both the undergraduate and graduate level with a particular focus on skills workshops in such areas as genomics, Python, R, Unix and Git version control.
Emily Davenport
Emily Davenport is a postdoc in the department of Molecular Biology and Genetics at Cornell University. Her research interests took her from a purely wet-lab biology background to dry-lab, computational territory while studying the human microbiome and genomics.
Rob Davey
Rob Davey is a group leader at the Genome Analysis Centre (TGAC) in Norwich, UK. He has a BSc in Microbiology and a PhD in Bioinformatics, and enjoys the challenges of solving problems through programming and algorithms. He is a firm open source, open data and open science advocate, with a deep desire to help train researchers in best practice for bioinformatics and software development.
Matt Davis
Matt Davis is a scientific software engineer at Autodesk. His interests include scientific Python, web applications, computing education, diversity in tech, and exploring beautiful California.
Steering Committee (Vice-Chair)
Neal Davis
Neal Davis is the Training Coordinator for Computational Science and Engineering at the University of Illinois at Urbana-Champaign, where he conducts training across a range of traditional engineering software programs and packages. His professional interests include engineering pedagogy, the foundations of computing, and the history of science.
Raffaella Demichelis
Raffaella Demichelis is a chemist working in computational materials science and geochemistry. Her research is focused on developing models able to describe and predict the atomic structure, the physical properties, and the surface chemistry of minerals, biominerals, and other materials. She joined the Software Carpentry team to help people acquire basic computing skills that will make their work easier, more accessible, less lonely, and, why not, that will eventually make them having more fun in doing it.
Gabriel Devenyi
Gabriel Devenyi is a Research Computing Engineer at McGill University in the Computational BRain Anatomy Laboratory. He develops software for analyzing MRI data and teaches open science to researchers and graduate students.
Maintainer: The Unix Shell
Ross Dickson
Ross Dickson has a Ph.D. in computational chemistry, and has been back and forth between academia and the software development industry a few times over the years. Now he helps profs, post-docs, and students in Atlantic Canada solve research problems involving high-performance computers.
David Dotson
David Dotson specializes in molecular dynamics simulation of biomolecules, which allow us to probe the mechanisms of protein function in atomic detail. He is a Python enthusiast, Linux nerd, and an advocate for the use of open source software in science. He is currently a Ph.D. student in the Center for Biological Physics at Arizona State University.
Kimberly Doyle
Kim Doyle is an early career research at the University of Melbourne in Media and Communication where she is completing her PhD on Data Journalism. Her interests include data mining and social media. She participated in THATcamp2014 and was a helper for the nltk steam at the first Research Bazar conference in 2015. She is also the graduate student representative for the Digital Humanities Incubator at Melbourne University.
Jonah Duckles
Jonah Duckles is Director of Informatics and Innovation in a joint appointment with The University of Oklahoma's Libraries and Information Technology organizations. In this role he partners with researchers to improve their comptuational workflows while developing maker spaces. He holds a BS in Physics and an MS in Forestry and Natural Resources, both from Purdue.
Dirk Eddelbuettel
Dirk Eddelbuettel has been contributing to Debian as a developer / maintainer since 1995. Most of his open source focus centers around R to which he has been contributing since the late 1990s. He works in Chicago as a senior quantitative analyst, and holds a PhD in Mathematical Economics from EHESS.
Justin Ely
Justin Ely is a Research and Instrument Analyst at the Space Telescope Science Institute where he supports the science operations of the Hubble Space Telescope. Primarily, he uses Python to monitor and improve the performance of the two on-board spectrographs, the Cosmic Origins Spectrograph and the Space Telescope Imaging Spectrograph.
Remi Emonet
Rémi Emonet is an associate professor at Saint Étienne University (France), working in the Machine Learning group of laboratoire Hubert Curien. His research currently focuses on probabilistic modeling and machine learning, but he has interests in various other fields including computer vision, software architecture, neuro-sciences, epidemiology and artificial intelligence. After spending some time individually promoting best practices and Git, mainly to his colleagues, he finally decided to join the Software Carpentry effort.
Maintainer: tools
Aaron Erlich
Aaron Erlich is a Ph.D. candidate in Political Science at the University of Washington. He studies how individuals in developing countries understand political uncertainty. Not coming from a programing background, he works to understand the challenges those in the (social) sciences have in learning to program. He has taught courses in both R and Python.
Daniel Falster
Daniel Falster is a post-doc at Macquarie University in Sydney, Australia. He uses a combination of math, computer models, and large data sets to test fundamental ideas about the processes shaping terrestrial vegetation and plant diversity. He is passionate about science, open data, reproducible research, and teaching biologists to code.
Emmanouil Farsarakis
Emmanouil Farsarakis is head of all Software Carpentry training provided by ARCHER, the UK National Supercomputing Service. He is an Applications Developer at EPCC and the University of Edinburgh, where his work focuses mostly on the optimisation and parallelisation of scientific codes. He also has many years' experience in education of multiple disciplines.
Xu Fei
Xu Fei took a detour to work for the UN in New York after completing his MS in neuroscience at McGill University in Canada. There he became fascinated by how adults learn new skills. He finally went for the SWC instructor training in 2014 and immediately regretted not doing it sooner. Currently he is running a startup to test the hypothesis that good data skills would make nonprofit organizations more efficient.
Angus Ferguson
Angus Ferguson is a masters student in History at the University Of Melbourne. His current research is on tertiary education policy and its effects on university teaching and research. He also has an interest in finding ways to apply computational approaches to historical questions.
Filipe Fernandes
Filipe Fernandes works for the Southeast Coastal Ocean Observing Regional Association. His activities involves building skill score assessment of numerical oceans models. Located at Salvador (Brazil) he is an oceanographer interested in regional numerical models.
Luis Figueira
Luis Figueira is a software developer with significant experience working in research environments. He graduated as an electrotechnical engineer, specialising in speech processing. For the past 3 years he's been working in the SoundSoftware project, based in the Centre for Digital Music, Queen Mary University of London, helping researchers from the audio and music fields to build more robust and reusable research software.
Rich FitzJohn
Rich FitzJohn is a postdoc at Macquarie University (Sydney, Australia). His research focusses on species traits and diversity, understanding how diversity in both species and their traits is generated. As a theoretical biologist, he uses a number of computational and statistical approaches, especially in R.
Konrad Förstner
Konrad Förstner holds a PhD in bioinformatics and is working at the Core Unit Systems Medicine of the University of Würzburg, Germany where he is mainly dealing with high-throughput sequencing data. Besides his research activities he tries to make the world a better place by spreading the idea of openness in science.
Auriel Fournier
Auriel Fournier is a wildlife ecologist currently pursuing her PhD in Biology in the Arkansas Cooperative Fish and Wildlife Research Unit at the University of Arkansas. Her work focuses on the migration ecology and habitat use of migrating rails during fall migration and evaluating the tradeoffs of wetland management for rails and waterfowl. She is interested in collaborative and reproducible ecological research (typically with a bird focus) and trying to rescue all the data hidden away in filing cabinets.
Philip Fowler
Philip Fowler uses computer simulation to understand how the proteins that sit in the membranes around cells in your body work. He enjoys teaching, especially trying out new ways of engaging students. By training he is a physicist but his interests have led him to the Department of Biochemistry at the University of Oxford, where he is currently a postdoc, via a PhD in Chemistry.
Chris Friedline
Chris Friedline is an NSF Postdoctoral Research Fellow at Virginia Commonwealth University working on uncovering the genetic architecture of a fire-adapted phenotype in four Pine species. He has a background in Information Technology, a masters in Bioinformatics, a Ph.D. in Integrative Life Sciences, and a passion for studying molecular evolution at multiple time scales.
Zhuo (April) Fu
Zhuo (April) Fu is a Postdoctoral Scholar at University of Virginia, where she studies diabetes and obesity at physiological and cellular level. She is passionate for optimizing and popularizing computing techniques that can facilitate data summarization and promote communication between scientists and the general public, especially in data visualization.
Emilia Gan
Emilia Gan is a student in the Pathobiology PhD Program at the University of Washington. She is a graduate of MIT (BS - Materials Science and Engineering) and the University of Massachusetts Medical School. Before entering grad school, Emilia homeschooled her three children and taught part-time at Bellevue College while taking math and CS classes.
Javier Garcia-Algarra
Javier Garcia-Algarra leads a group of Operations Analysis in Telefónica R&D (Madrid, Spain), where he has worked in different innovation areas for the telecom industry during the last two decades. He holds a degree in Electronic Engineering and M.Sc. in Physics, and with the left side of the brain a Ph.D. in Art History. He collaborates with the Complex Systems Group of UPM, working in theoretical models of population biology.
Leonor Garcia-Gutierrez
Leonor Garcia-Gutierrez is a PhD student in Interdisciplinary Mathematics at the University of Warwick (UK), where she is working on a code to simulate blood flow in microvessels. She is passionate about public speaking, teaching and learning how to write better software.
Julian Garcia
Julián García is a computational scientist. He is a Lecturer at the Faculty of Information Technology at Monash University, where he uses computers to understand evolution and teaches Computer Programming and Computational Science. Before moving to Australia he lived in Colombia, the Netherlands and Germany.
Aaron Garoutte
Aaron Garoutte is a graduate student at Michigan State University studying microbial ecology and plant microbe interactions in the soil. His interest in programming stems from using bioinformatics tools to analyze metagenomic data.
Chris Gates
Chris Gates has worked in software engineering including work in startups, consultancies, and academia across a range of domains and technologies. Since 2007, his focus has been on bioinformatics, mostly analysis and application of high-throughput genomics data. He is currently the lead software engineer at University of Michigan's Bioinformatics Core where he designs, implements, and maintains operational data pipelines.
Laurent Gatto
Laurent Gatto is a computational biologist at the University of Cambridge, UK, an associated member of the Bioconductor project and a fellow of the Software Sustainability Institute. He works mainly on data analysis and method development for quantitative proteomics data using R and regularly teaches R and scientific programming in Cambridge and abroad.
Noushin Ghaffari
Noushin Ghaffari received her Ph.D. degree in Electrical and Computer Engineering from Texas A&M University, focusing on complexity reduction of gene regulatory networks. She is currently a Bioinformatics Scientist at AgriLife Genomics and Bioinformatics, where she investigates the development of new bioinformatics tools, analyzes data from Next Generation Sequencing (NGS) technologies, supervises graduate students, and provides statistical/bioinformatics trainings for faculty/students across TAMU.
Molly Gibson
Molly Gibson is a Ph.D. candidate in Computational & Systems Biology at Washington University in Saint Louis. Her research focuses on the ecological resistance and resiliency of microbial community structures and functions to perturbation by antibiotic treatment.
Carole Goble
Carole Goble is Professor of Computer Science in the University of Manchester, and has spent the past twenty years developing innovative computing approaches in knowledge management, distributed computing and social computing to support scientific researchers in a wide variety of areas, including Taverna, BioCatalogue, myExperiment, and SEEK. She is a partner in the UK's Software Sustainability Institute.
Advisory Council
Ivan Gonzalez
Ivan Gonzalez is physicist working as a programmer at the Martinos Center for Biomedical Imaging in Boston.
Maintainer: Version Control with Git
Gerard Gorman
Gerard Gorman is a computational physicist at Imperial College London. His research interests include parallel algorithms, irregular computation, high performance computing, multi-scale and multi-physics modelling and inversion problems.
Laura Graham
Laura Graham has a PhD in Geography from the University of Nottingham. She is a spatial/computational ecologist interested in what impacts environmental changes have on species’ distributions and how we can use this information in landscape and conservation planning to reduce detrimental effects. Having previously been a mathematician and database developer, she applies skills learned there to ecological questions.
Jonathan Gross
Jonathan Gross is a Ph.D. candidate in quantum information theory at the University of New Mexico where he works on quantum control and quantum measurement theory. Jonathan also has an undergraduate degree in computer engineering from the University of Arizona, where he learned the importance of good software engineering practices.
Thomas Guignard
Thomas Guignard is a librarian and consultant based in Toronto, Ontario. He holds a PhD in Acoustics from the École Polytechnique Fédérale de Lausanne (EPFL) and has been working in academic libraries since 2006. He's also a maker and hobby programmer, and strongly believes in empowering kids and adults through a better understanding of technology.
Julia Gustavsen
Julia Gustavsen is a PhD student at the University of British Columbia in Biological Oceanography. Her thesis work focuses on the changes in marine viral communities over time and space. She received her BA and BSc from the University of New Brunswick.
Richard 'Tommy' Guy
Richard "Tommy" Guy is a Senior Data Scientist at Microsoft where he works on large scale A/B testing. Previously, he was a Ph.D. student at the University of Toronto. He is also active in planning and teaching the Community Data Science Workshops in Seattle, WA.
Jonathan Guyer
Jonathan Guyer is leader of the Mechanical Performance Group at the National Institute of Standards and Technology. He is co-developer of the FiPy partial differential equation solver framework, which he uses for modeling phase transformations in materials. Jon received his PhD in Materials Science and Engineering from Northwestern University in 1997. Before that, he was a submarine officer.
Steven Haddock
Steven Haddock is a Research Scientist at the Monterey Bay Aquarium Research Institute and adjunct Associate Professor at U.C. Santa Cruz, studying bioluminescence and biodiversity of marine zooplankton. He co-authored Practical Computing for Biologists with Casey Dunn.
Denis Haine
Denis Haine is a veterinarian and PhD candidate in veterinary epidemiology at the Université de Montréal, QC. For the last 10 years he has held several positions, as epidemiology and biostats consultant, director of biostatistics in a CRO and scientific assistant in a NSERC research centre.
Maintainer: Programming with R
Sam Hames
Sam Hames is a PhD student at the University of Queensland. Coming from an engineering background, he is working on applying biomedical image analysis to understanding human skin. He is particularly interested in how software can be used to improve clinical understanding of imagery.
Christopher Hamm
Christopher Hamm is a postdoc in the Department of Ecology and Evolutionary Biology at the University of Kansas. His research focuses on the evolution and ecology of insects (mostly butterflies). Chris earned his his PhD from Michigan State Universty in 2012 and his dog's name is Larry.
Jessica Hamrick
Jessica Hamrick is a graduate student in computational cognitive science at the University of California, Berkeley. Her research involves building formal mathematical models of human behavior using tools from psychology, statistics, and machine learning. In her spare time, Jessica enjoys contributing to open source projects and teaching others about tools like Python and Git.
Mike Hansen
Mike Hansen is a PhD student in Computer Science and Cognitive Science at Indiana University. His research interests include quantifying the complexity of software using cognitive models of programmers. He has designed and developed software professionally for almost ten years, and enjoys teaching others the skill and art of programming.
Rayna Harris
Rayna Harris is a graduate student at the University of Texas in Austin. She studies the neuromolecular basis of social behavior and is involved in several initiatives to enhance training in the life sciences.
Anthony Harrison
Anthony Harrison is currently UK Chief Software Architect for Thales with a particular interest in the use of Open Source Software in industrial applications. He is a Chartered Engineer, a Fellow of the BCS and Chartered IT Professional and a member of the Industrial advisory board for Computer Science at York University. In his spare time, he teachines computing to children using Scratch, Python, and Javascript, often using the Raspberry PI.
Emelie Harstad
Emelie Harstad received a PhD in Physics from the University of Oregon in 2013, and currently works as an Applications Specialist at the UNL Holland Computing Center, where she helps campus researchers use the local supercomputing resources. She also works part-time as User Support for the Open Science Grid.
Ted Hart
Edmund (Ted) Hart is a senior data scientist in Silicon Valley and adjunct faculty in the biology department at the University of Vermont. He received his PhD in ecology from the University of Vermont, and did his post-doc at the University of British Columbia. In his spare time he develops open source software for ecology.
Ian Hawke
Ian Hawke works on numerical simulations of neutron stars at the University of Southampton. He teaches numerical methods, and is a co-Director of the CDT in Next Generation Computational Modelling.
Fabian Held
Fabian Held is a postdoc at the University of Sydney's Charles Perkins Centre. In this interdisciplinary center for research on chronic disease, he enjoys working with experts from many fields, and he contributes to statistical analyses, computational modelling of complex adaptive systems and the analysis of social networks. His own research interests are collaborative networks and the way we can support, sustain and manage (in) them.
Ian Henry
Ian Henry obtained his undergraduate degree from the University of Edinburgh in Molecular Biology and his Ph.D from the University of Nottingham in Genetics/Bioinformatics. He current leads the Scientific Computing Facility at the Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG) in Dresden, Germany, which provides bioinformatics, scientific software development and bioimage informatics services to research groups at the MPI-CBG and across the Dresden campus.
Joshua Herr
Josh Herr is located at Michigan State University in the Department of Microbiology & Molecular Genetics. His research interests introduced him to phylogenetics at the command line and he has transitioned from the lab bench (almost entirely) to the computational analysis of microbial genomes and metagenomes. Josh blogs about his research interests at Cyme & Cystidium, is a moderator at the bioinformatics help forum Biostar, and instructs for the EDAMAME course which teaches computational tools to microbial ecologists.
Kate Hertweck
Kate Hertweck is an assistant professor in the Department of Biology at the University of Texas at Tyler. Her general research interests include evolutionary biology, phylogenetics, and comparative genomics, although she is particularly fond of transposable elements, plant systematics, and next-generation sequencing analysis. She is an alumna of Western Kentucky University (B.S), University of Missouri (Ph.D.), and NESCent/Duke University (postdoctoral fellow).
James Hetherington
James Hetherington leads the Research Software Development Team at University College London. The team collaborates with research groups to create readable, reliable and efficient scientific software. He has experience as a scientific programmer in academia and industry on physics, physiology and climate.
James Hiebert
James Hiebert is computer scientist who has worked extensively in the earth and ocean sciences. After earning his Masters in Computer Science from the University of Oregon, he helped map the ocean floors with NOAA's Office of Coast Survey and since has been working to project the impacts of climate change on British Columbia and the Pacific Northwest with the Pacific Climate Impacts Consortium. The common theme of his career has been writing software to scalably analyze massive amounts of spatio-temporal earth and ocean data.
Cody Hinchliff
Cody Hinchliff is a computational evolutionary biologist with a background in web development. He works primarily with large genetic datasets to address questions related to the origins and maintenance of biodiversity in plants, and programs primarily in Python, Java, and R (among other things).
Konrad Hinsen
Konrad Hinsen is a theoretical physicist by training who currently works on protein structure and dynamics and scientific computing at the Centre de Biophysique Moléculaire in Orléans (France) and at the Synchrotron Soleil in Saint Aubin (France). He is also a department editor for Computing in Science and Engineering.
Daniel Hocking
Daniel Hocking is a postdoctoral researcher in the Department of Environmental Conservation at the UMass-Amherst. He studies the effects of land-use and climate change on animal populations. He is currently using Hierarchical Bayesian methods to forecast brook trout populations in response to climate change throughout their native range.
Amy Hodge
Since July 2012, Amy Hodge has served as the Science Data Librarian at Stanford University Libraries, where she helps Stanford researchers with all aspects of data management, including teaching best practices for data organization and analysis. Before joining the Libraries, she spent nearly ten years in the business world working on science databases and learning the beauty of SQL. Amy has a PhD in Molecular Biophysics and Biochemistry from Yale University, where she studied ubiquitin-mediated regulation of the Saccharomyces cerevisiae cell cycle.
Chris Holdgraf
Chris Holdgraf studies cognitive and computational neuroscience at UC Berkeley. He is interested in linking higher-level theories of the mind with information processing in the brain, currently exploring how we make sense of noisy or incomplete auditory information. He's also an editor and manager for The Berkeley Science Review and serves as an advisor to Beyond Academia.
Jeff Hollister
Jeff Hollister is a research ecologist with expertise in landscape ecology, GIS, and water quality. He works for the USEPA at the Office of Research and Development's Atlantic Ecology Division in Narragansett, RI. A large part of Jeff's work focuses on encouraging both his EPA colleagues and the broader community to increase their use of open science, reproducible research, and R.
Daisie Huang
Daisie Huang is a software engineer turned plant phylogeneticist turned software engineer. Currently she is both a postdoctoral researcher at the University of British Columbia, working on phylogenomics in the genus Populus, and a software developer for the Dryad Digital Repository.
Maintainer: Version Control with Git
Katy Huff
Katy Huff is a Postdoctoral Scholar and BIDS Data Science Fellow in Nuclear Engineering at the University of California – Berkeley. She recently authored "Effective Computation in Physics: Field Guide to Research in Python." She received her Ph.D. from the University of Wisconsin – Madison, where she helped found The Hacker Within.
Steering Committee (Chair)
Fatma Imamoglu
Fatma Imamoglu is a postdoctoral researcher at the International Computer Science Institute, UC Berkeley’s Helen Wills Neuroscience Institute and a data science fellow at the Berkeley Institute for Data Science. She is interested in how sensory information is encoded in the brain and uses machine learning approaches to fit computational models to brain data acquired by functional magnetic resonance imaging. Her current research is on the representation of language and music in the human brain.
Damien Irving
Damien Irving is a PhD candidate in Meteorology at the University of Melbourne, where his research focuses on the climate of the high southern latitudes. He also writes a blog about research best practice in the weather/climate sciences, teaches software skills to researchers through an innovative new project called the Research Bazaar, and is the unofficial coordinator of Software Carpentry activities in Australia.
Paul Ivanov
Paul Ivanov is a graduate student in the Vision Science program at UC Berkeley. His interests include eye tracking, GPGPU programming, and natural image statistics.
Mike Jackson
Mike Jackson has a background in human-computer interaction and is a software architect at the Edinburgh Parallel Computing Centre. He is also a consultant with the Software Sustainability Institute.
Christian Jacobs
Christian Jacobs is a postdoctoral researcher in the Applied Modelling and Computation Group at Imperial College London. His research is in the field of computational fluid dynamics, and currently focusses on multiphase flow modelling and the automated generation of numerical models. In addition to research, he thoroughly enjoys teaching and open-source software development, particularly with Python.
Zbigniew Jędrzejewski-Szmek
Zbigniew Jędrzejewski-Szmek works in a mixed experimental—computational neuroscience lab and writes stochastic simulators and programs for the analysis of experimental data. He is active in the Fedora Linux distribution where he works on the init system. He also helps organize the Advanced Scientific Programming in Python summer school series.
Ben Johnson
Ben Johnson is a Ph.D. student at Michigan State University studying microbiology and molecular genetics, focusing on drug discovery and intracellular adaptation pathways as new targets to treat Mycobacterium tuberculosis. He want to make the computational tools used to analyze large sequencing data sets accessible, useable, open, and reproducible.
David Jones
David Jones as been a software engineer for 15 years. He has a Masters in Applied Mathematics from UMass Lowell, and his main interests include algorithms, programming languages, and software tools.
Martin Jones
Martin Jones is a biologist by training who learned to write code during his PhD and started teaching others to do the same shortly after. He uses Python every day in my own research and regularly teaches programming courses to biologists and bioinformaticians. He's currently Lecturer in Bioinformatics at Edinburgh University.
Tom Kelly
Tom Kelly is a computational geneticist with research experience in evolution, epigenetics, and cancer genetics. He is currently studying towards a PhD on genetic interactions in breast cancer at the University of Otago in New Zealand. With a background in Mathematics and Life Sciences, he uses both data analysis and modelling approaches to problems. Facing the challenges of modern interdisciplinary research, he has become involved in science communication, education, and collaboration initiatives.
Jessica Kerr
Jessica Kerr has channeled an undergraduate physics degree into a programming career. She loves computer science, especially when it intersects with math and complexity theory. Her goals include acquiring new tastes, sharing enthusiasm, and keeping two crazy-happy children alive.
Jan T. Kim
Jan T. Kim is head of bioinformatics at The Pirbright Institute. His scientific interests revolve around information in biological systems and have led him to acquire principled knowledge in the biosciences as well as in computer science and mathematical fields relevant to information theory. Jan also has several years of experience in programming, scientific computing and machine learning. He very much likes interdisciplinary work and enjoys learning and teaching, where his favourites include explaining computing to bioscientists and illuminating biology to computer scientists.
Trevor King
W. Trevor King is a freelance software developer who moonlights as an evangelist for open source software in general, and Git and Python in particular.
Isabell Kiral-Kornek
Isabell Kiral-Kornek is a Ph.D. candidate at The University of Melbourne. As part of Bionic Vision Australia, she focuses in her research on how to best convey information visually to an implant recipient to help in daily tasks, such as reading. She started programming in Basic on an Atari 8000XL when she was six years old and enjoys learning new languages.
Maintainer: Programming with MATLAB
Justin Kitzes
Justin Kitzes is a postdoc in the Energy and Resources Group and a Data Science Fellow at the Berkeley Institute for Data Science at the University of California, Berkeley. His research centers on the intersection of quantitative ecology and conservation biology, with a focus on developing general methods to predict patterns of biodiversity in human-altered landscapes.
Christina Koch
Christina Koch is a mathematician who loves people, computers and helping people use computers. She currently works as a research computing facilitator at the University of Wisconsin, Madison, where she serves as a liaison between researchers and campus compute resources.
Maintainer: The Unix Shell
Steven Koenig
Steven Koenig is studying the production of microbial exopolysaccharides using renewable resources at Technische Universität München, Straubing Center of Science, Chair of Chemistry of Biogenic Resources as a Ph.D. candidate.
Alexander Koeppel
Alexander Koeppel is an Analyst in the Bioinformatics Core Facility at the University of Virginia School of Medicine. He routinely performs data analysis on genome-scale biological datasets. His background is in microbial ecology and evolution.
Bernhard Konrad
Bernhard Konrad is a PhD student in Mathematical Biology at the University of British Columbia. He studies how HIV spreads within a single host or a city network. Bernhard loves to work on and talk about Data Science and Machine Learning, both of which he likes to apply to his open source and volunteer-run side project Math Education Resources.
Olivier Lafleur
Olivier Lafleur is a teacher in Computer Science at Cégep de Lévis-Lauzon. He likes to see the spark in the eyes of learning students. He is passionnate about Open Source and Open Science, and really likes clean code and clean architecture.
Damien Irving
Isabelle Laforest-Lapointe is a Ph.D. candidate in Biology at Université du Québec à Montréal, where she is studying the interactions between plants and microbes. Her project focuses on the phyllosphere microbiome of trees across natural and urban ecosystems. She holds two master degrees: ecology and statistics. She loves sharing knowledge and teaching, especially on the use of R and statistics.
Karin Lagesen
Karin Lagesen has a PhD in bioinformatics and has since focused on the processing of high throughput sequencing data in various forms. With a background in both computational science and molecular biology, she has taught programming and computational analysis to both master and PhD students and believes that this should be an integral part of any biologist's toolbox.
Steering Committee (Secretary)
Sherry Lake
Sherry Lake is a digital curation librarian at the University of Virginia Library where she has taught many courses on databases and best practices for data collection and management. Sherry has been working with and teaching about UNIX systems since the late 1980’s. Sherry describes herself as being the bridge between technology and its users. She has a BS in Computer Science from the University of Virginia, and a MS in Information Sciences.
Jeremiah Lant
Jeremiah Lant is a Hydrologist for the U.S. Geological Survey (USGS) at the Kentucky Water Science Center in Louisville, Kentucky. His work includes hydrodynamic and hydrologic modeling with an emphasis on flood-inundation modeling. He enjoys rock climbing, teaching, programming, and sharing a passion for open science and open software.
Chris Lasher
Chris Lasher works at the interfaces of molecular biology, computer science, and software development. In 2007, he lead a weekly Software Carpentry boot camp at Virginia Tech for postdocs and graduate students. To this day, Chris continues to improve his good programming habits and extol the virtues of Python, his most beloved programming language.
Doug Latornell
Doug Latornell is a professional engineer with post-graduate degrees in experimental and computational fluid mechanics and modeling and control of robotic manipulators. He works for Nordion in Vancouver, where he helps produce medical isotopes by proton irradiation from cyclotrons. Side projects include work on a coupled biology and physics model of deep estuaries that, through the winter months, calculates a daily prediction of the date of the first spring phytoplankton bloom in the Strait of Georgia.
Maintainer: Version Control with Mercurial
David LeBauer
David LeBauer is research scientist at the University of Illinois and a Fellow at the National Center for Supercomputing Applications. His research objective is to understand, predict, and manage ecosystem function. To support the computational and informatics demands of ecological prediction and inference, he leads development of the Predictive Ecosystem Analyzer, a system for model-data synthesis as well as its database backend, BETYdb. In addition, he contributes to the development and assessment of statistical and simulation models.
Kate Lee
Kate Lee has a plant science background and more recently has moved into bioinformatics. She is currently a research assistant in the University of Leicester where she organises training in Next Generation Sequencing data analysis and provides bioinformatics support on projects from around the college including epigenetics, GWAS, transcriptomics, evolution and various bespoke scripting.
Victor (Kwangchun) Lee
Victor (Kwangchun) Lee is the founder of XWMOOC, a digital contents startup for computational thinking and software engineering in Korea. He set up business and system architecture for Free Trade Agreement (FTA) and Origin Management at the Hyundai Motor Company, and led automotive semiconductor developement and purchasing at Hyundai Autron. Victor contributed to the Korean translation of Software Carpentry. Victor has master's degrees in software engineering and statistics.
Luke Lee
Over the last 10 years, Luke Lee has written software for everything from Python desktop and web applications to embedded C drivers for solid state disks. He currently writes scientific Python applications for Blueback Reservoir in Houston, Texas, and is an active member of the Houston Django and Python user groups.
Jacob Levernier
Jacob Levernier is a PhD student in Psychology at the University of Oregon, studying moral development, research ethics with digital data, and applied statistics. Jacob works between the disciplines of Psychology, Philosophy, and Computer Science. His interest in scientific computing centers on data management and workflow automation, both in the social sciences and related disciplines, including library science.
Jean-Christophe Leyder
Jean-Christophe Leyder is a Research Fellow at the European Space Agency (ESA) and works at the European Space Astronomy Centre (ESAC) in Spain, where he studies the physical properties of massive stars, most often using X-rays and gamma-rays.
Matthew Lightman
Matthew Lightman is a Data Scientist at American Express in New York City. He received his PhD in physics from Columbia University, where he worked on simulating particle interactions on large computer clusters. Matthew is passionate about education, and believes that beginning researchers can learn to use scripting and programming tools effectively so that they can get closer to the "80% of the work with 20% of the effort" ideal of the Pareto Principle.
Johnny Lin
Johnny Lin trained as a climate dynamicist but now is a Senior Lecturer and Director of Undergraduate Computing Education in the Computing and Software Systems Division at the University of Washington Bothell and an Affiliate Professor of Physics and Engineering at North Park University in Chicago.
Elijah Lowe
Elijah Lowe is a Ph.D. candidate in Computer Science and Quantitative Biology at Michigan State University. His research focus is on tail loss and development of invertebrate chordates using RNA-seq data. Originally from Atlanta, he received a B.S. in Computer Science from Morehouse College, and is currently in the New York City area.
Yuxi Luo
Yuxi Luo works at the Institute of Modern Physics, Chinese Academy of Sciences. He loves data science, especially applying knowledge to solve problems in diverse areas. He believes that he can learn more when teaching others.
Cam Macdonell
Cam Macdonell is a faculty instructor at in the Department of Computer Science Grant MacEwan University in Edmonton, Alberta. His teaching and research relate to operating systems, software engineering, cloud computing and virtualization.
Gary Macindoe
Gary Macindoe obtained his PhD in Computational Statistics from UCL developing hybrid algorithms for linear algebra operations on multicore CPUs and GPUs. He currently works as a Research Software Developer for UCL working with researchers and collaborators to produce and maintain readable, efficient and reliable research software.
Dan MacLean
Dan MacLean is Head of Bioinformatics at The Sainsbury Laboratory. His group works on projects ranging from genomics through bioinformatics and citizen science to evolutionary modelling in the field of Plant-Microbe Interactions.
Joshua Madin
Joshua Madin is a quantitative ecologist at Macquarie University in Sydney, Australia. His research focuses on marine systems, especially coral reefs, where he uses biophysics, ecological theory and informatics to address questions at a range of ecological scales. For example, I explore questions spanning from the ecological consequences of tropical cyclones to the biogeographical role of functional traits. Joshua, his students and collaborators rely heavily on the tools taught by Software Carpentry to address such questions.
Cindee Madison
Cindee Madison is a backend Data Engineer in Berkeley, CA, and a board member of NumFOCUS. She has been working in Python and Data Science for 8+ years. Her interests range from visualization and image processing to graph theory and machine learning.
Tamer Mansour
Tamer Mansour is a postdoc at UC Davis. He graduated in medicine and hold a Master's degree in clinical pathology and a PhD of genetics and bioinformatics. His work focuses on applications of NGS in genetic disease discovery.
Paula Martinez
Paula Martinez is a PhD candidate in Applied Bioinformatics at the University of Queensland. She has a background in Computer Science and an MSc in Bioinformatics. Her current research interests include evolutionary biology, comparative genomics, and analysis of large-scale datasets. She wants to be more involved in research communities to empower participative work.
Sina Masoud-Ansari
Sina Masoud-Ansari works as a high performance computing and eResearch consultant as the University of Auckland. His interests are in parallel and GPU computing as well as machine learning. He works with a range of researchers from various domains and helps develop tools and workflows to enable research.
Daniel Mcdonald
Daniel McDonald is a PhD student in linguistics at the University of Melbourne. His research involves combining corpus and computational linguistic methods with systemic functional linguistics in order to investigate (very) large amounts of text.
Stephen McGough
Stephen McGough is a Lecturer in Computing Sciences at Durham University and a member of the Institute of Advanced Research Computing (iARC). His research interests lie in the areas of high performance and high throughput computing along with their implications for green computing.
Catherine McGoveran
Catherine McGoveran is the Government Information Librarian at the University of Ottawa and a volunteer with Open Data Ottawa. Her current interests are in data literacy, visualization, and open government.
Sheldon McKay
Sheldon McKay is a computational biologist with a background and interests in genetics, phylogenetics and comparative genomics. He has participated in a number of biological database projects, including WormBase, GMOD, modENCODE, iPlant, and Reactome.
Maintainer: Using Databases and SQL
Jessica McKellar
Jessica McKellar is a kernel engineer living in Cambridge, MA. She is a Python Software Foundation board member and an organizer for the largest Python user group in the world. With that group she runs the Boston Python Workshops for women and their friends—an introductory programming pipeline that has brought hundreds of women into the local Python community and is being replicated in cities across the US.
Maria McKinley
Maria McKinley is a software developer in a neuroscience lab at the University of Washington. She creates video games used to learn more about how our memory works, using Python and the 3D game engine, Panda3d. She is passionate about the craft of coding, and loves sharing what she has learned.
Cameron Mclean
Cameron McLean is a PhD candidate in Computer Science at the University of Auckland. Hailing from the biological sciences originally, and a keen open science advocate, his current research is exploring the use of design patterns as a novel knowledge representation framework on the Semantic Web. He wants to make it easier to capture and share aspects of laboratory practice, and to help researchers find, understand, and reuse/reproduce appropriate laboratory methods.
Emily Jane McTavish
Emily Jane McTavish is a Humboldt Research Fellow working on phylogenetics at the Heidelberg Institute for Theoretical Studies, in Germany. She is also a part-time postdoc at University of Kansas developing tools for updating and revising the tree of life, as part of the Open Tree project.
Jeremy Metz
Jeremy Metz is an Experimental Officer for Image Processing in the Biosciences at the University of Exeter. He develops tools to address a range of scientifically interesting questions using mainly Python, Matlab, and ImageJ macros and plugins. Being a physicist by training, Jeremy is interested in using quantitative techniques to help generate simulations of Biophysical systems.
Lauren Michael
Lauren Michael is a Research Computing Facilitator at the University of Wisconsin - Madison, where she helps researchers navigate the world of large-scale computing resources and related training opportunities. Lauren's own previous research examined the formation of RNA motifs and RNA-protein interactions using compute-intensive methods. She also has interests and experience in science communication, and serves as a member of the NSF-funded ACI-REF program.
Simon Michnowicz~
Simon Michnowicz works at Monash Universtiy's e-Research group, where he helps researchers use High Performance Computing facilities to advance their work. He has a background in Computational Proteomics, and has a keen interest in educating users to find new ways to solve old problems.
Francois Michonneau
François Michonneau is an evolutionary biologist interested in the origins of biodiversity, especially among marine invertebrates. He believes that the computing skills taught during Software Carpentry workshops are critical for a broad adoption of reproducible science, a topic he is passionate about.
Brian Miles
Brian Miles is a research scientist at the Institute for the Environment at the University of North Carolina at Chapel Hill. His research is focused on stormwater pollution in urbanized ecosystems, environmental modeling, and hydroinformatics. Brian was originally trained as a software developer, and current develops ecohydrology modeling tools to improve scientific reproducibility and researcher productivity.
Bill Mills
Bill Mills is a physicist and community manager for the Mozilla Science Lab, an open science initiative of the Mozilla Foundation and Software Carpentry Foundation partner. Prior to joining Mozilla, Bill worked as a software developer at TRIUMF, Canada's national lab for nuclear and particle physics, where he focused on overhauling software development and use, and worked on UI and UX for next-generation many-user experiments.
Amanda Miotto
Amanda Miotto is an eResearch Support Specialist in Griffith University’s eResearch Services group. She graduated with a Bachelor of Science majoring in Bioinformatics before gaining hands-on experience developing software systems in support of a range of projects in genomics, systems biology and adult stem cell research. She writes in php, python and spends a lot of time in Bash.
Meeta Mistry
Meeta Mistry is a member of the Bionformatics Core at the Harvard School of Public Health. Her training began in Biochemistry, however postgraduate interests in computational approaches fostered the transition to Bioinformatics. Her expertise includes complex statistical analysis of large-scale datasets, specifically those pertaining to next-generation sequencing data. She also has a passion for teaching bioinformatics with experience at the high school, graduate and postgraduate level. Meeta has a PhD in Bioinformatics from the University of British Columbia.
Ian M. Mitchell
Ian M. Mitchell is an associate professor in the Department of Computer Science at the University of British Columbia. His research interests include scientific computing, cyber-physical systems, formal verification, and reproducible research.
Jason Moore
Jason Moore is a postdoctoral researcher in biomechanical engineering and an advocate for open science and computational reproducibility.
Ben Morris
Ben Morris is a backend engineer in Silicon Valley interested in distributed systems and analytics. He received his B.S. in Computational Biology from Utah State University, where he worked with Ethan White developing open source software to make scientific data more accessible.
Erika Mudrak
Erika Mudrak is on the staff at the Cornell Statistical Consulting Unit, where she consults with researchers across campus on a wide range of analytical research. She has a PhD in Ecology (Botany Dept) and an MS in Biometry (Statistics Dept) from the University of Wisconsin - Madison. Her research interests include multivariate and spatial analysis, data visualization, data management and reproducible research. She co-hosts a the blog accidental aRt with fellow SWC instructor Kara Woo, where they curate examples of data visualizations gone beautifully wrong.
Ian Munoz
Ian Muñoz is a scientific programmer at SESYNC, where he spends most of his time in R and Postgresql. Ian hails from Colorado State University, and has a Bachelors in Economics. He enjoys learning how different tools excel at different tasks and has a passion for open source.
Hani Nakhoul
Hani Nakhoul is an MD/PhD student at Tulane University in New Orleans. In his research, he uses high-throughput sequencing and computational methods to study the role of viruses in cancer.
Lex Nederbragt
Lex Nederbragt is a self-taught bioinformatician working with high-throughput DNA sequencing data at Oslo University, Norway. His speciality is the assembly of genomes from short pieces of sequence information.
Aleksandra Nenadic
Aleksandra Nenadic is ELIXIR-UK's Training Coordinator for ICT and Software, based at the School of Computer Science, University of Manchester, where she also completed a PhD in Internet security. She currently also oversees BioCatalogue, is involved with the Software Sustainability Institute, and when she has time still programs in Java and Ruby on Rails.
Daiva Nielsen
Daiva Nielsen is a postdoc at Harvard Medical School and Brigham and Women's Hospital. Her research is in translational genomics, which aims to develop processes for integrating clinically relevant genomic information into medical practice to improve health outcomes. She is keen to continue to develop her data skills and promote reproducible research in science.
Jens Nielsen
Jens Nielsen holds a PhD in experimental physics from Aarhus University, Denmark. He is now working as a Research Software Developer at UCL collaborating with researchers to write and maintain readable and reliable software for their research projects. He has been using git and programming in python for a number of years and is semi-regular contributor to Matplotlib.
Alan O'Cais
Alan O'Cais is a theoretical physicist by trade (PhD from Trinity College Dublin in 2006) who has spent the last number of years working within application and user support among some of worlds largest supercomputing centers. He is currently helping to develop virtual research communities (including remote support and training infrastructures) for computational researchers in the Eastern Mediterranean.
Aaron O'Leary
Aaron O'Leary is a PhD student at the University of Leeds, performing lab and field work looking at the dynamics of storms and doing lots of time series analysis. Aaron loves Git and Python and is currently working part-time as a software developer and cycle courier.
Randy Olson
Randy Olson is a Computer Science graduate research assistant at Michigan State University in Dr. Chris Adami's lab specializing in artificial intelligence, artificial life, and evolutionary computation. He runs a research blog where he writes about scientific computing, data visualization, evolution, and AI. Randy is an ardent advocate of open science and regularly travels the U.S. to teach researchers scientific computing skills at Software Carpentry workshops.
Jeramia Ory
Jeramia Ory is an Associate Professor of Biology at King's College in Wilkes-Barre, PA. A self-described "data junkie," he uses the tools Software Carpentry teaches to analyze genomic data sets when he is not teaching Biochemistry or Genetics to undergraduates. His educational interests include the use of metacognition to enable student learning, nontraditional lecture models, and the role of technology in science education.
Kirill Palamartchouk
Kirill Palamartchouk is a Researcher in satellite geodesy at Newcastle University, UK. His science involves elements of geophysics and radioelectronics, meteorology and celestial mechanics, and, of course, computing. Kirill believes that following good computing practices is very important, and likes to help fellow researchers do things reliably and efficiently. He can teach in English, Russian, and Greek.
Martin Paulo
Martin Paulo is a software developer who has had a long and varied career: he started out writing assembler for embedded systems. From there, via grid programming, he made the move to more conventional development, as a team lead in the in the financial services arena. For the last few years he has been active as a developer helping to support the research community. Martin has a particular interest in the human side of software development and cloud computing.
Aleksandra Pawlik
Aleksandra Pawlik works for the Software Sustainability Institute at the University of Manchester. She coordinates the Institute's training activities, including Software Carpentry workshops and the Institute's collaboration with the Centers for Doctoral Training in the UK. Aleksandra holds a PhD in Computing from the Open University and her PhD research focused on documentation in scientific software.
Steering Committee
John Pearson
John Pearson was trained as a physicist but now works as a computational neuroscientist at the Duke Institute for Brain Sciences. His research focuses on applying machine learning to brain data, with particular interest in the cognitive processes underlying decision making. He is passionate about equipping undergraduate and graduate students with the computational tools needed to make the most of their data.
Jason Pell
Jason Pell is a Ph.D. student in Computer Science and Quantitative Biology at Michigan State University who is primarily interested in tackling large next-generation DNA sequencing datasets. He holds a B.A. in Computer Science from Grand Valley State University.
David Pérez-Suárez
David Pérez-Suárez is a post-doc at the Mullard Space Science Laboratory (University College London), as a member of the Solar Physics group. He mainly works doing image processing and time-series analisys of solar data, but he is also active in a couple of projects involving webservices, workflows and grid computing. David is one of the developers of a Python library for solar physicists and one of the scientists behind a citizen science project to classify sunspots.
Fernando Perez
Fernando Perez is a research scientist at the Helen Wills Neuroscience Institute at U.C. Berkeley. His work involves the development and implementation of new algorithms and tools for neuroimaging, with a special interest in functional MRI. He is also actively involved with the development of new tools for high-level scientific computing, mostly using the Python language.
Mariela Perignon
Mariela Perignon is a fluvial geomorphologist doing a post-doc at the University of Colorado at Boulder. She is interested in the movement of sediment across river networks and the contribution of individual floods to the long-term evolution of landscapes.
Giacomo Peru
Giacomo Peru is a project officer at the Software Sustainability Institute. He helps with administration and coordination of workshops in the UK. His background is in Classics (Università di Sassari) and in European Studies (Rome).
Marian Petre
Marian Petre is a Professor of Computing at the Open University. She holds a Royal Society/Wolfson Research Merit Award in recognition of her research on expertise in software design. With degrees in both Psycholinguistics and Computer Science, Marian's research spans empirical studies of software development, representation and visualisation for software design, psychology of programming, human-centred computing, and computer science education.
Advisory Council
Stefan Pfenninger
Stefan Pfenninger is a PhD student at Imperial College London. His research is focused on energy policy and energy systems modeling, but he is also interested in climate policy more generally, including resilience and strategies for adapting society and infrastructure to a changing climate. His background is in environmental science and policy.
Jon Pipitone
Jon Pipitone is a Research Methods Specialist in the Translational Imaging-Genetics Research Lab at the Centre for Addiction and Mental Health, Toronto, Canada where he works on neuroimaging-based studies of mental illness.
Mark Plumbley
Mark Plumbley is Director of the Centre for Digital Music (C4DM) at Queen Mary, University of London, and leads the SoundSoftware.ac.uk project. His work in audio signal analysis includes beat tracking, music transcription, source separation and object coding, using techniques such as neural networks, independent component analysis, sparse representations and Bayesian modeling.
Advisory Council
Tom Pollard
Tom Pollard is a PhD student at University College London, looking at models of acute physiological health in critical care patients. He is a @SoftwareSaved Fellow, and he'd like academic research to be less competitive and more collaborative.
Likit Preeyanon
Likit Preeyanon works at the Faculty of Medical Technology, Mahidol university, Thailand where he builds cyberinfrastructure for big medical data analysis and tackles biological problems utilizing data from high-throughput technologies.
Leighton Pritchard
Leighton Pritchard works at the James Hutton Institute in Dundee, Scotland. Originally a chemist, he's now a computational biologist, with interests in plant pathology, systems biology, and bacterial metabolism and regulation.
Francoise Provencher
Françoise Provencher is a data analyst at Shopify. She received her PhD in physics from Université de Montreal. She organises the Montreal PyLadies group.
Sean Pue
Sean Pue a literary historian and digital humanist, is the author of I Too Have Some Dreams: N. M. Rashed and Modernism in Urdu Poetry. He is eternally grateful to Software Carpentry for teaching him tab completion. Sean is an associate professor at Michigan State University and blogs at http://seanpue.com.
Karthik Ram
Karthik Ram is a quantitative ecologist at UC Berkeley broadly interested in the structure and dynamics of food webs in terrestrial systems. He blogs at Inundata, and is also the co-founder of rOpenSci, a project which aims to foster reproducible research and data reuse through open source software tools.
R Saravanan
R Saravanan is a professor in the Department of Atmospheric Sciences at Texas A&M University. His research involves the use of supercomputers for numerical modeling and data analysis to study past, present, and future climates. He also dabbles in open source and teaches courses in meteorology, climate, and introductory programming (using Python).
Karina Ramos-Musalem
Karina Ramos-Musalem is a PhD student in Physical Oceanography at the University of British Coulumbia. Her research focuses on modelling, either numerically or physically, various aspects of the flow within and around coastal submarine canyons and their impact on the exchange of nutrients between the continental shelf and the open ocean.
Tim Rice
Tim Rice has an Honours degree in Maths & Stats from University of Melbourne, focused on probability and applied maths. He writes open source software and presents on computational topics at Melbourne Linux Users Group.
Janet Riley
Janet Riley is a programmer at Cantina Consulting, where she writes web applications for a variety of clients and industries. Her MS in Computer Science from Boston University nicely complements her BA in Classical Studies from the University of Massachusetts Amherst.
David Rio
David Rio is a Software Engineer from Barcelona, Catalonia, Spain. He holds a B.S in Computer Science and is currently working at the Human Genome Sequencing Center in Baylor College of Medicine as a lead software engineer. He is passionate about using technology to help scientists with their research, an active contributor to all types of open source projects, and believes in the importance of teaching programming to non-computational scientists.
Scott Ritchie
Scott Ritchie is a Ph.D. Student in the Medical Systems Biology lab at the University of Melbourne, Australia. He has a background in Computer Science and Bioinformatics, and his day-to-day research primarily consists of methods development and data analysis using R. His research interests include gene coexpression networks, and data visualisation.
James Robinson
James Robinson is a PhD student in marine ecology at the University of Victoria, BC. He uses large datasets to explore human impacts on aquatic ecosystems, from coral reefs to freshwater lakes He teaches introductory R workshops to biologists, and is a strong supporter of open science.
Natalie Robinson
Natalie Robinson earned her PhD at the University of Colorado, Boulder, studying the causes of species diversity patterns in urban, fragmented ecosystems around the globe. She is currently a quantitative ecologist and biostatistician at NEON, where she processes and analyzes continental-scale ecological and spatial data that will be used by scientists worldwide to better understand the responses of species and ecosystems to such disturbances as climate and land-use change.
Rosario Robinson
Rosario Robinson is working toward a more inclusive tech community by introducing women and underrepresented minorities to open source. Rose works with Her Systers’ Keeper, a virtual community of technical women with more than 5,000 members from over 54 countries, manages Systers' open source projects, and is Systers' Google Summer of Code Administrator. She has more than 20 years tech consulting experience in various industries including telecommunications, geospatial and infrastructure.
Andrew Rohl
Andrew Rohl is a computational materials scientist at Curtin University in Western Australia. His research focuses on crystal growth using both ab initio and forcefield techniques. He has been the director of a supercomputing centre and currently is leading an institute focussed on computation across all fields of research.
Ariel Rokem
Ariel Rokem is a Data Scientist at the University of Washington eScience Institute, where he builds software tools to conduct reproducible scientific research and collaborates with scientists in a variety of fields. He received his PhD in Neuroscience at UC Berkeley at 2010, followed by a postdoctoral fellowship in Psychology at Stanford University.
Noam Ross
Noam Ross is a doctoral student in Ecology at the University of California-Davis. His research includes forest and disease ecology and bioeconomics. Noam also manages the Davis R Users' Group, and dabbles in many open-source projects to bring computational and web communication tools to the ecology community.
Billy Rowell
Billy Rowell is a Research Specialist at Howard Hughes Medical Institute Janelia Research Campus, where he designs, runs, and analyzes data from high-throughput behavioral assays, and helps others automate workflow and analysis. He has an MA in Molecular and Cell Biology from the University of California, where he studied fruit fly genetics and development.
John Rugis
John Rugis is a Computer Scientist working for the New Zealand eScience Infrastructure (NeSI) at the University of Auckland. His primary research interests are 3D visualisation of scientific data, software design for GPU's in cluster computing and the geometry of 3D discrete point sets. He also studies the morphology and propagation of New Zealand endemic ferns.
Ramesh Sampath
Ramesh Sampath is a software engineer at a startup and tries to make sense of data. He is proficient with Python data tools and enjoys helping others learn the tools and techniques required to solve computational problems.
Michael Sarahan
Michael Sarahan earned a PhD in materials science from UC Davis by writing some very scary Python code. He now does his penance by helping other people write better code. As director of software development at Nion Co., he enjoys enabling better science with computers. He moonlights as a tutor, and hopes to support his family by teaching one day.
Martin Schilling
Martin Schilling is a PhD candidate in Biology at Utah State University. He is interested in bioinformatic and statistical methods for next-generation sequencing in population genetics and evolutionary biology. He is working on the evolution and ecology of plant reproductive systems in a genomic context.
Jory Schossau
Jory Schossau is a Ph.D. student at Michigan State University studying evolution through simulation, complexity measurement, and game theory. He is also involved in various outreach and education projects from educational game design to classroom teaching.
Rachel Schwartz
Rachel Schwartz is a research scientist at Arizona State University with a background in ecology and evolutionary biology. She currently develops methods for phylogenomics, including the software SISRS, which extracts phylogenetically useful data from raw next-generation sequencing reads.
Anthony Scopatz
Anthony Scopatz has a PhD in Mechanical and Nuclear Engineering from the University of Texas at Austin, and is now an assistant scientist in the Engineering Physics Department at the University of Wisconsin-Madison.
Michael Selik
Michael Selik is a data scientist at Infochimps. Over his career, he has worked for major enterprises and venture-backed startups delivering sophisticated analysis and technology project management services from hyperlocal demographics inference to market share forecasting. He received a MS Economics, a BS Computer Science, and a BS International Affairs from the Georgia Institute of Technology.
Neem Serra
Neem Serra is an iOS developer in the St. Louis area with a background in genomics and evolutionary biology. Her interests include reading fantasy/scifi novels, playing board games, and eating cupcakes.
Brent Shambaugh
Brent Shambaugh has a Masters in Chemical Engineering and has taught undergraduate chemistry as a adjunct professor. Today he spends most of his time developing a concept for virtual organizations for peer production with linked data and semantic web technologies. He also started Code Norman.
Jeff Shelton
Jeff Shelton studies control aspects of human motion. Having spent more than two decades in industry before returning to Purdue University for his PhD in Mechanical Engineering, he is interested in aligning educational methods with the evolving societal roles performed by engineers.
Jennifer Shelton
Jennifer Shelton focuses on bioinformatics analysis and workflow development because it is clear that the efficient parsing of large datasets is increasingly important to the biological sciences. She finds this field rich with opportunities, and sees the "open science" model as a logical extension of the scientific method because it is a way to reduce redundancy and increase reproducibility.
Leigh Sheneman
Leigh Sheneman is a computer science Ph.D. student at Michigan State University, where she uses digital evolution to study epistasis between body and brain.She has spent many years helping non-profit organizations develop interactive applications that focus on efficiency. She holds degrees from Texas A&M University and the University of Texas at Tyler.
Yu-Ching Shih
Yu-Ching Shih is a computational scientist and engineer. He received his Ph.D in Applied Mechanics from National Taiwan University in 2013. He is now interested in applying his analytical and computational knowledge to the problems in machine learning and data science.
Raniere Silva
Raniere Silva is an undergraduate of applied mathematics at University of Campinas working with linear programming. His focus is in free/open software for the collaborative development of robust, reproducible, and scalable software tools for computational science and open science/access.
Steering Committee
Maintainer: tools
Sarah Simpkin
Sarah Simpkin is a GIS and geography librarian at the University of Ottawa. She is interested in digital curation, metadata, and historical GIS applications, and is also a volunteer with Open Data Ottawa.
Jack Simpson
Jack Simpson is a PhD student at the Australian National University researching honeybee behaviour. He spends most of his time filming bees and then writing software to track their movements.
Rachel Slaybaugh
Rachel Slaybaugh is an Assistant Professor of Nuclear Engineering at the University of California Berkeley where she develops radiation transport methods for application to reactors, shielding, and nuclear security applications. Rachel writes in C++, Python, and Fortran, and has research experience with massively parallel code systems.
Clare Sloggett
Clare Sloggett is a research fellow and bioinformatician at the Victorian Life Sciences Computation Initiative. She works in genomics on a variety of projects, principally in cancer genomics, and is interested in the application of statistical and machine learning methods to bioinformatics. She also teaches a Masters-level subject in genomics algorithms at the University of Melbourne.
Daniel Smith
Daniel Smith is a Ph.D. candidate in Chemistry at Auburn University. His research focuses on elucidating the interactions between molecules and works on open source quantum chemistry software packages in his free time.
Joshua Ryan Smith
Joshua Ryan Smith specializes in electronic devices based on wide-bandgap semiconductor materials and in the past has done work in surface science and nanofabrication. Joshua is a native of North Carolina and received his Ph.D. in physics from North Carolina State University; he learned Python programming in graduate school and has an interest in understanding the design of experiments in terms of the practices of software development.
Mike Smorul
Mike Smorul is the Associate Director for Cyberinfrastructure at SESYNC where he oversees development SESYNC's research computing infrastructure. He has a background in professional software development, system/network administration, high performance computing and digital archiving.
Nancy Soontiens
Nancy Soontiens is a postdoctoral researcher at the University of British Columbia where she works on regional ocean modelling. She received her PhD in Applied Mathematics at the University of Waterloo.
Ashwin Srinath
Ashwin Srinath is a Master's student in Mechanical Engineering—passing off as a computer scientist—at Clemson University, where he does research in high-performance computational fluid dynamics. He works with Python as much as possible, but can be persuaded to code in C, C++ or Fortran.
Maintainer: Programming with MATLAB
Daniel Standage
Daniel Standage is a Ph.D. candidate in the Computational Genome Science Lab at Indiana University. His general research interests are in genome biology and genome informatics, with a particular focus on genome annotation and analysis of high-throughput sequence data. When he's not writing research software or cleaning up data, he enjoys hiking/camping with his family and cooking breakfast.
Mitchell Stanton-Cook
Mitchell Stanton-Cook is a Software Engineer and Systems Administrator in the Beatson Microbial Genomics Group at the University of Queensland, Australia. He manages nearing 1000 Next-Generation Sequencing data sets. His work involves developing solutions for the efficient storage, processing and analysis of ngs data sets.
Margaret Staton
Meg Staton is an assistant professor at the University of Tennessee Institute of Agriculture in the department of Entomology and Plant Pathology. Her research interests span bioinformatics, genomics and web development with a focus on hardwood trees. She maintains the hardwood genomics website and a lab website.
Peter Steinbach
Peter Steinbach is a high-performance computing developer at the Max Planck Institute of Molecular Cell Biology and Genetics in Dresden (Germany). He has a PhD in Particle Physics and is now responsible of accelerating scientific applications in a myriad of languages as well as on a zoology of hardware platforms.
Sarah Stevens
Sarah Stevens is a Ph.D candidate in Microbiology at the University of Wisconsin - Madison. She works in the McMahon Lab, studying how the whole genomes of freshwater bacterial populations change through time. She also organizes a Molecular Microbial Ecology and Evolution (MoMiEE) focus group, bringing together scientists at UW-Madison to learn computational/bioinformatics methods.
Mark Stillwell
Mark Stillwell is a Researcher at Imperial College London in the United Kingdom. The main subjects of his research are scheduling algorithms for distributed systems and simulation of distributed computing platforms.
Jonathan Strootman
Jonathan Strootman is a full-time software engineer on the iPlant Collaborative Core Software team. His experience with the command line began while playing Gorillas on MS-DOS 5.
Mike Sumner
Mike Sumner is a data munger at the Australian Antarctic Division, working in partnership with the Antarctic Climate and Ecosystems CRC and the Institute of Marine and Antarctic Studies at the University of Tasmania in Hobart. He develops and maintains tools to couple ecosystem models with remote sensing data and oceanographic model output, sailing the dire straits between scientific model data formats and geographic information systems. He loves teaching programming skills to new users, especially when map projections are involved and is excited by new web technologies to bring interactive exploratory data analysis out in the open.
Sarah Supp
Sarah Supp is a postdoctoral associate at Stony Brook University where she studies the impacts of climate change on hummingbirds throughout the western hemisphere. She received her Ph.D. in Ecology from Utah State University, where she first learned about Software Carpentry.
Svaksha
Svaksha is a software developer and an active FOSS contributor with interests in open data, computational science, bioinformatics and open access.
Gayathri Swaminathan
Gayathri Swaminathan is a Linux Senior Systems Engineer and open source community advocate at Rackspace. Her team supports Enterprise infrastructure for Rackspace customers. She holds a Masters in Computer Science from the University of Oklahoma and several professional certifications. As an avid enthusiast of Opensource communities, Gayathri serves as volunteer for LinuxChix and Fedora Documentation project. She is passionate about science, data, reverse engineering and involving girls to new coding exercises and projects.
Bradley Taber-Thomas
Brad Taber-Thomas is a cognitive neuroscientist studying the brain systems involved in social-emotional development. He works as a Postdoc at Penn State University, obtained his PhD in Neuroscience from the University of Iowa, and is a native of Western New York.
Leszek Tarkowski
Leszek Tarkowski runs a small company czterybity.pl (Polish for "four bits") focused on teaching C, C++ and Python. He has a PhD in materials science, preceded by MSc in physics but after quite long time as scientist in IMIM he has left academia. My experience as a programmer is based of my needs for data processing and visualization. Leszek lives in Kraków, Poland.
Becca Tarvin
Becca Tarvin is a PhD student at the University of Texas at Austin working to understand the evolution of aposematism and resistance to auto-intoxication in poison frogs. She uses Python, Bash, and R to deal with large genomic and ecological datasets.
Rachael Tatman
Rachael Tatman is a PhD student in linguistics at the University of Washington. Her specializations include phonetics, phonology and sign linguistics and she's interested in how humans perceived and produce sub-lexical linguistics units. She is especially excited by computational methods for behavioural science.
Tracy Teal
Tracy Teal is a bioinformatics specialist at Michigan State University, having completed an NSF Postdoctoral Fellowship in Biological Informatics. She has developed open-source tools for metagenomics analysis and, as a member of the Great Lakes Bioenergy Research Center, studied the effects of land use change on microbial communities and greenhouse gas flux.
Advisory Council
Andrew Teucher
Andrew Teucher holds an MSc in terrestrial ecology, and currently works on analysis and public reporting of environmental status and trend indicators for the British Columbia government. He works with his colleagues to promote good data management and programming practices, and teaches introductory R courses to other government scientists.
Kaitlin Thaney
Kaitlin Thaney is the director of the Mozilla Science Lab, an open science initiative of the Mozilla Foundation and Software Carpentry Foundation partner. Prior to Mozilla she worked for Digital Science, a technology arm of Macmillan Science and Education, as well as Creative Commons, where she managed the science program. Kaitlin also advises the UK government on infrastructure for data-intensive science and business and is a Director for DataKind UK.
Advisory Council
Robert Till
Robert Till is an Associate Professor of Fire Science at John Jay College of Criminal Justice, City University of New York. He regularly teaches courses in Fire Risk Analysis, Fire Dynamics and Special Suppression Systems. His main area of research is simulating fire and disasters in urban infrastructure.
Tiffany Timbers
Tiffany Timbers obtained her Ph.D. in Neuroscience from the University of British Columbia in Vancouver, and is currently a Postdoctoral Fellow at Simon Fraser University. Her research uses uses genomics in combination with high-throughput automated phenotyping to uncover how nervous systems enable animals to sense and respond appropriately to the external environment.
Will Trimble
Will Trimble is a postdoc in the metagenomic annotation group at Argonne National Laboratory led by Folker Meyer, the group which provides and maintains MG-RAST. He was trained in experimental physics and has moved into computational biology, using computers and math to analyze bulky high-throughput sequence data. He switched fields out of a desire to participate in inderdisciplinary research and teaches Software Carpentry because he regrets using computers so much for years without learning the tricks.
Daniel Turek
Daniel Turek is a postdoc in the Department of Statistics at the University of California, Berkeley, and also a Fellow with the Berkeley Institute for Data Science. Daniel completed his PhD at the University of Otago located in Dunedin, New Zealand, where he studied multi-model inference and model averaging. His current research interests include computational statistics, efficient MCMC algorithms, and the evolving field of data science.
Stephen Turner
Stephen Turner is an assistant professor in public health sciences at the University of Virginia, and director of UVA's bioinformatics core. He works closely with other life scientists at UVA and abroad in the study design and data analysis of experiments involving large, genome-scale biological data.
Fiona Tweedie
Fiona Tweedie holds a PhD in Ancient History from the University of Sydney. She now leads a program at the University of Melbourne training researchers in digital research tools and methods, with a focus on capacity-building in the Digital Humanities. She volunteers with Open Knowledge Australia and is an unrepentant fabulist.
Daniela Ushizima
Daniela Ushizima is the head deputy of the Data Analytics and Visualization group and a staff scientist at the Lawrence Berkeley National Lab. She is also a data scientist fellow with the Berkeley Institute for Data Sciences, UC Berkeley. Her interests include pattern recognition, computer vision, machine learning, signal processing, quantitative microscopy, and high-performance computing.
Olav Vahtras
Olav Vahtras is a professor of theoretical chemistry at the KTH Royal Institute of Technology, Stockholm. His research involves development of quantum chemical methods for prediction of molecular properties and he teaches Python in a national program for computational sciences.
Ramnath Vaidyanathan
Ramnath Vaidyanathan is an Assistant Professor of Operations Management at McGill University. He holds a PhD in Operations Management from the Wharton School, and has worked at McKinsey and Company. He is addicted to R and has developed two R packages, Slidify and rCharts, both aimed at simplifying the creation and sharing of interactive web-based content with R.
Roman Valls Guimera
Roman Valls Guimerà completed his MSc in Computational Biology in KTH, Sweden. He has been working on high throughput bioinformatics pipelines and distributed computing environments at Science for Life Laboratory in Stockholm and taught courses on software engineering best practices to scientists, primarily in Python.
Anelda van der Walt
Anelda van der Walt obtained a MSc in Bioinformatics from the South African National Bioinformatics Institute and have worked as bioinformatics analyst at national genomics and next generation sequencing platforms. She enjoys working with software developers as well as applied researchers and have a passion for training post graduate students.
Vicky Varga
Vicky Varga is the manager of IT Customer Service at the Edmonton Public Library. She has experience working with PHP, JavaScript, Cold Fusion, SQL, and Drupal from her days as a web developer. She has a strong interest in teaching librarians the basics of programming and workflow automation to aid them in their work.
Nelle Varoquaux
After working as a Python software engineer, Nelle Varoquaux returned to university in 2011 to pursue an applied mathematics degree, specializing in machine learning. She is now using her skills to solve biological problems, such as reconstructing the 3D architecture of the genome.
Bogdan Vera
Bogdan Vera is a PhD student in the Centre for Digital Music, at Queen Mary University of London, and previously studied at the University of York and Bournemouth University. His research is about distributed music technologies that can enable musicians to more effectively perform and compose music over great distances using the internet.
Alex Viana
Alex Viana is a Software Engineer at Terbium Labs, an Information Security startup based in Baltimore, MD, USA. Previously, he was a Research and Instrument Analyst at the Space Telescope Science Institute where he supported the operations of the Hubble Space Telescope. Alex works primarily in Python and has taught workshops in the US and Brazil in both English and Portuguese.
Jens von der Linden
Jens von der Linden is a PhD student in plasma physics at the University of Washington. He is designing and building an experiment to simulate astrophysical jets in the lab. His focus is the interaction between twisted magnetic fields and twisted flows in the jets and their stabilizing effects. He uses Python for data analysis, and has also worked on plasma fluid simulations in Fortran and Python.
Leanne Wake
Leanne Wake is an early career researcher based in Newcastle, UK specialising in modelling the solid Earth and geoid response to the evolution of ice sheets, specifically Greenland. She became involved with Software Carpentry via the Software Sustainability Institute because she believes everyone should have the opportunity to learn to code.
Andrew Walker
Andrew Walker is a computational geophysicist at the University of Leeds. After a degree in geology, a PhD in mineral physics, and ten years of postdoctoral research, he now holds a personal fellowship from the Natural Environment Research Council in the Institute of Geophysics and Tectonics. Andrew's research focuses on modelling the way that the Earth's interior deforms from the atomic to the planetary scale.
Alistair Walsh
Alistair Walsh is about to be a PhD candidate at the University of Melbourne in Australia. He holds an Honours Degree in Cognitive Neuroscience and a BSc in Psychology/Psychophysiology, and has worked at the Defence Science Technology Organisation in Adelaide and led a research agreement between Swinburne University and the Land Operations Division of the DSTO into the use of open source biological sensors in human factors research. Alistair is the co-ordinator of NeuralCode at Swinburne University, Hawthorn, which is a resource for brain scientists to learn coding.
Dan Warren
Dan Warren is an evolutionary ecologist with a strong focus on developing new analytical methods. He is currently working as a DECRA postdoctoral fellow at Macquarie University in Sydney, Australia. In his spare time he makes music, and lately has been doing a lot of soundtracks for nature documentaries.
Leah Wasser
Leah Wasser works as a remote sensing data scientist/senior science educator at the National Ecological Observatory Network (NEON). She received her PhD in ecology at Penn State, and has a passion for ecology, remote sensing, and GIS.
Ben Waugh
Ben Waugh writes and maintains software, teaches programming and a bit of physics, manages computer systems and drinks lots of coffee in the Department of Physics and Astronomy at University College London, mostly in the High-Energy Physics Group.
Belinda Weaver
Belinda Weaver works for the Queensland Cyber Infrastructure Foundation, which provides eResearch infrastructure, including cloud resources, to Queensland universities. Based at The University of Queensland in Brisbane, Australia, she leads a team of nine eResearch Analysts statewide. Belinda tweets as @cloudaus.
Ben Weinstein
Ben Weinstein is a PhD student at Stony Brook University studying tropical ecology. His research interests include automated monitoring for biodiversity, network analysis and community ecology of plants and pollinators. When not working in Ecuador, Ben enjoys climbing and birding with his wife and dog.
Ethan White
Ethan White is an Associate Professor in the Department of Biology and the Ecology Center at Utah State University. He is a Moore Investigator in Data-Driven Discovery and a recipient of the National Science Foundation CAREER "Young Investigators" Award. He is a proponent of open and reproducible science and serves on the Data Carpentry steering committee, the Impactstory board of directors, and the editorial boards of PLOS ONE and PeerJ.
Advisory Council
Easton White
Easton White is a PhD student in Population Biology at the University of California, Davis. His research uses mathematical and statistical tools to answer questions related to population dynamics, evolution of life history traits, and eco-evolutionary dynamics.
Asela Wijeratne
Asela Wijeratne works as a Research Scientist at the Molecular and Cellular Imaging Center at the Ohio Agriculture Research and Development Center at Ohio State University. His research interest is in high-throughput genomics and has keen interest in sharing knowledge and expertise to help others. He received his PhD from Penn State in 2007.
Mark Wilber
Mark Wilber is a PhD student at University of California, Santa Barbara. His research interests include understanding how disease and disturbance can affect the structure of ecological communities.
Chandler Wilkerson
Chandler Wilkerson has supported Linux and Unix systems for academic users since 2001. Since 2007, he has specialized in high-performance computing in support of researchers at Rice University. Chandler is also a husband, father, juggler, and disc golfer in his spare time. He sometimes blogs at http://chwilk.blogs.rice.edu/ and helps maintain his group's website at http://www.rcsg.rice.edu/.
Jason Williams
Jason Williams is the Education, Outreach, and Training lead for the iPlant Collaborative, where he organizes, manages, and instructs more than a dozen annual workshops. He has been instructional staff at Cold Spring Harbor Laboratory's DNA Learning Center for the past 5 years, and been research staff at Cold Spring Harbor Laboratory for 5 years prior to that. Besides his position at iPlant, Jason has a faculty position at Yeshiva University in New York, where he manages a research program for their Girl's High School, and is also a member of the Scientific Training Advisory Board for the Genome Analysis Centre in Norwich, UK.
Steering Committee (Treasurer)
Lynne Williams
Lynne Williams works at the Rotman-Baycrest Research Institute, where she studies the cognitive neuroscience of language development over the lifespan and develops statistical techniques to analyze large multivariate data sets. Her most recent work is concerned with pattern classifiers in brain imaging and age-associated patterns of variability in brain activation.
Ryan Williams
Ryan Williams is a postdoctoral researcher at Iowa State University in Agricultural and Biosystems Engineering. He uses ecological theory to understand complex patterns within microbial communities and metagenomic data that relate to changes in the environment. Away from the computer, Ryan applies his research findings to educate local farmers about microbial ecology and agricultural sustainability.
Greg Wilson
Greg Wilson started the Software Carpentry project in 1998. He has been a professional software developer, an author, and a university professor. Greg received his PhD in Computer Science from the University of Edinburgh in 1993.
Executive Director
Paul Wilson
Paul Wilson is a Professor at the U. Wisconsin-Madison where he teaches nuclear engineering. His research group, CNERG, delivers new capability for the simulation of complex nuclear systems. The Hacker Within was born from his research group as he tried to impart Software Carpentry skills upon his graduate students.
Donald Winston
Donny Winston studied scanning-charged-particle-beam lithography before shifting professional focus to software-as-a-service. He maintains and develops open, web-based tools for data-driven discovery of advanced materials (see materialsproject.org) at the Lawrence Berkeley National Laboratory. He uses hyphens extensively.
Kara Woo
Kara Woo is an information manager at Washington State University studying plankton ecology in lakes. In her free time she collects beautiful examples of data visualizations gone awry with Erika Mudrak on their blog accidental aRt.
Christopher Woods
Christopher Woods is a researcher at the University of Bristol, where he develops software for modelling medicinal drugs and proteins. He obtained his PhD in physical chemistry at the University of Southampton, where four years hacking through established academic codes gave him a keen appreciation of the importance of clean design, good documentation, testing and version control.
Thomas Wright
Tom Wright is researching the effect of disease on the human eye. He creates tools to analyse high resolution imaging and electro-physiological signals and integrate the results with demographic and phenotypic information scrapped from a variety of sources. His love of the command line started with 10 PRINT "hello" GOTO 10.
Fan Yang
Fan Yang is currently a postdoctoral research scientist at Iowa State University. Her research interest is studying microbial communities and extrapolating their functions and impacts from integrated datasets, such as sequence data and biogeochemistry data. She was greatly benefited by attending a Software Carpentry course when she was in graduate school and would like to pass on the great experience and learn more through teaching.
Constantine Zakkaroff
Constantine Zakkaroff is a Post-doctoral Research Fellow at the BlueFern Supercomputing Centre, University of Canterbury, New Zealand. Constantine has a BSc and MSc in Computer Science and Software Engineering from the University of Canterbury, New Zealand. Constantine's PhD in medical image analysis is from the University of Leeds, UK. Constantine's current research is focused on large-scale physiological simulation and parallel computing. His expertise covers object-oriented software design, scientific visualization and supercomputing.
Qingpeng Zhang
Qingpeng Zhang is a Ph.D. candidate in Computer Science and Quantitative Biology at Michigan State University. Broadly his research interest is developing novel computational method to make sense of the big data generated in biological research, especially large metagenomic data. He obtained a bachelor degree in Physics from Nanjing University in China.
Naupaka Zimmerman
Naupaka Zimmerman a postdoctoral fellow in the University of Arizona School of Plant Sciences studying the microbial ecology of plants and their associated fungi. He has a PhD from Stanford in Ecology and Evolutionary Biology. His love of the command line started way back with the Commodore 64 and LOAD "*",8,1.
Tiziano Zito
Tiziano Zito moved from theoretical physics through neuroscience to finally become a full-time system administrator. He is now working as a Scientific Computing Coordinator at the Jülich Forschungszentrum in Germany. He is the main organizer of the Advanced Scientific Programming in Python summer school series.
Andrea Zonca
Andrea Zonca has a background in astrophysics and now works helping other scientists deploy their data analysis software on supercomputers as staff at the San Diego Supercomputing Center.