CaPSID: Computational Pathogen Sequence IDentification
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capsid-pipeline @ a540718
capsid-webapp @ dcdf9d3


CaPSID (Computational Pathogen Sequence IDentification) is a comprehensive open source platform which integrates a high-performance computational pipeline for pathogen sequence identification and characterization in human genomes and transcriptomes together with a scalable results database and a user-friendly web-based software application for managing, querying and visualizing results.

Project Leader Vincent Ferretti
Development Team Ivan Borozan, Philippe Laflamme, Shane Wilson

Downloading and using CaPSID is free, if you use CaPSID or its code in your work please acknowledge CaPSID by referring to its github homepage This is important for us since obtaining grants is one significant way to fund planning and implementation for our project. Also if you find CaPSID useful in your research feel free to let us know.

Getting Started

You will need a MongoDB database, a Python 2.7 installation and a Java Web Server. For more details, read the wiki:

License and Copyright

Licensed under the GNU General Public License, Version 3.0. See LICENSE for more details.

Copyright 2011 The Ontario Institute for Cancer Research.


This project is supported by the Ontario Institute for Cancer Research (OICR) through funding provided by the government of Ontario, Canada.