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Software Carpentry: Learn Basic Computing Skills to Be More Effective in the Lab

Software Carpentry: Learn Basic Computing Skills to Be More Effective in the Lab

Friday, March 6, 2015 - Saturday, March 7, 2015

The New York Academy of Sciences


Software Carpentry's aim is to teach scientists and researchers at the graduate level and above in science, engineering, and medicine the basic computing concepts and skills that will let them get more done in less time, and with less pain. Our two-day curriculum shows participants how to automate repetitive tasks with the Unix shell, how to grow a program from a few lines to a few hundred using Python or R, how to track and share their work using Git, and how to manage data using SQL. Lessons alternate with hands-on practical sessions, and instructors, who are all working scientists, draw on their own experience to show how these ideas are useful in real-world situations.


Sheldon McKay, PhD

Ontario Institute for Cancer Research

Sheldon McKay is a computational biologist with a background in genetics and genomics. He has participated in a number of biological database projects, such as the Generic Model Organism Database (GMOD) project and the model organism Encyclopedia of DNA Elements (modENCODE) project. He is long-time contributor to open source software for scientific computing and data interoperability. He is currently working with the Reactome Knowledgebase and the PanCancer Collaboratory with the Ontario Institute for Cancer Research.

Matthew Aiello-Lammens, PhD

University of Connecticut

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. He has experience applying a wide array of computational techniques to answer questions in physics, neuroscience, and ecology. When not doing research, he spends time with his wife and daughter, preferably out in the woods.

Jason Williams

Cold Spring Harbor

Jason Williams is the iPlant’s Education, Outreach, and Training Lead – Based out of Cold Spring Harbor Laboratory, Cold Spring Harbor NY, he has a background in plant molecular biology. For iPlant, Jason organizes, manages, and instructs more than a dozen annual bioinformatics workshops, conferences, and other events. 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. Jason is also faculty at Yeshiva University – running a science immersion course at Yeshiva University High School for Girls, and is also a member of the Scientific Training Advisory Board for the Genome Analysis Centre in Norwich, UK.

Daniel Chen

Virginia Tech

Daniel Chen is a Graduate Research Associate at the Virginia Bioinformatics Institute at Virginia Tech. He is currently working in the Social Decision Analytics Lab studying diffusion of information in social networks. He got his Masters of Public Health in Epidemiology from Columbia University and is a Doctoral Candidate at Virginia Tech in Genetics Bioinformatics and Computational Biology where he hope to bridge data science with epidemiology and health care.

Target Audience

This boot camp is designed for graduate students, postdocs, and faculty in the biomedical sciences.


Participants must bring a laptop with a few specific software packages installed. Links to download the software will be sent before the boot camp.


Prior to the course, registrants will be given a survey to assess their computing skills. Participants will then be separated into either a novice or intermediate class.

More Information

For more information about Software Carpentry please visit

Tentative Agenda

The meeting will run from 9:00 AM–5:00 PM on March 6–7, 2015. Lunch will be provided both days.

Further details forthcoming.

Registration Pricing

Member (Student / Postdoc / Resident / Fellow)$55
Nonmember (Student / Postdoc / Resident / Fellow)$70

Travel & Lodging

Our Location

The New York Academy of Sciences

7 World Trade Center
250 Greenwich Street, 40th floor
New York, NY 10007-2157

Directions to the Academy

Hotels Near 7 World Trade Center

Recommended partner hotel

Club Quarters, World Trade Center
140 Washington Street
New York, NY 10006
Phone: 212.577.1133

The New York Academy of Sciences is a member of the Club Quarters network, which offers significant savings on hotel reservations to member organizations. Located opposite Memorial Plaza on the south side of the World Trade Center, Club Quarters, World Trade Center is just a short walk to the Academy.

Use Club Quarters Reservation Password NYAS to reserve your discounted accommodations online.

Other nearby hotels

Conrad New York


Millenium Hilton


Marriott Financial Center


Club Quarters, Wall Street


Eurostars Wall Street Hotel


Gild Hall, Financial District


Wall Street Inn


Ritz-Carlton New York, Battery Park