Download
This page is here for archival purpose. Please visit github for the latest version of the software: https://github.com/pathoscope
PathoScope takes next-generation sequencing reads from a mixture sample and predicts which genomes are present. We use a Bayesian framework combined with an initial reference-based alignment to assign reads to the correct genome of origin.
Pathoscope 2.0:
Wiki:
http://sourceforge.net/p/pathoscope/wiki/Home/
Tutorial:
http://sourceforge.net/projects/pathoscope/files/pathoscope2.0_v0.02_tutorial.pdf
Clinical Pathoscope version: http://sourceforge.net/p/pathoscope/wiki/clinical_pathoscope/
PathoQC download: http://sourceforge.net/projects/pathoscope/files/pathoqc_v0.1.4.tar.gz/download
Publications: http://www.microbiomejournal.com/content/2/1/33
http://www.biomedcentral.com/1471-2105/15/262
http://genome.cshlp.org/content/23/10/1721
Support:
PS: Please send an email to mani2012 at bu dot edu if you have any questions.
Features
- PathoQC: PathoQC is a quality control and preprocessing standalone program for a high-throughput dataset. Please download PathoQC from http://sourceforge.net/projects/pathoscope/files/pathoqc_v0.1.4.tar.gz/download
- PathoQC Publication: http://la-press.com/article.php?article_id=4828
- Support: https://groups.google.com/d/forum/pathoscope
- Lab Page: http://jlab.bu.edu/software/
