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Our Software

In connection with our projects, the Sabeti Lab has created a number of open source software tools:

Composite of Multiple Signals (“CMS”): tests for selection in meiotically recombinant populations

Documentation
Source code

Cosi2: a fast coalescent simulator with selection
Installation instructions
Documentation
Source code

viral-ngs: genomic analysis scripts and pipelines for viral sequencing

Documentation
Source code

Mirador: a tool to identify new hypothesis in complex datasets through visual exploration

Home page
Documentation
Source code

Mirador Open Data Competition
Information

National Health and Nutrition Examination Survey Data and Scripts
GitHub repository

Ebola CARE prognosis prediction and treatment recommendation app



Home page
Google Play page
Source code

sabetilab-remote-config: configuration files for systems deployed at our African field sites 

Source code

Contributions

Members of the Sabeti Lab are also contributors to a number of external open source projects with relevance to the biological sciences:

bioconda: a channel for the conda package manager specializing in bioinformatics software

Documentation

Snakemake: a scalable bioinformatics workflow engine (in Python)
Documentation

Processing: a flexible software sketchbook and a language for learning how to code within the context of the visual arts.

Processing for Android

Contact Us

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Pardis

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  • Harvard University
  • 52 Oxford Street, Cambridge, Massachusetts 02138

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News

  • Pardis interviews with HuffPost Entertainment
  • Watch Pardis’ TED talk!
  • Sabeti Lab researchers publish paper on Lassa virus in Cell
  • Mahan Nekoui, undergrad in the lab, has been named one of top 20 under 20 by Plan Canada
  • Sabeti Lab Researchers Publish Analysis of Ebola Virus
  • Dr. Sabeti announced as HHMI investigator
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