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, Stuart Watt
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 https://github.com/capsid. 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.
You will need a MongoDB database, a Python 2.7 installation and a Java Web Server. For more details, read the wiki:
https://github.com/capsid/capsid/wiki/
CaPSID now uses Maven (make sure to use 3.1.1 at least) for building the web application. We recommend:
$ mvn to build the application. Once it is built, you can also use this command to run the web application directly from the command line:
$ mvn verify -Prun-server -pl capsid-webapp-httpdLicensed 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.