InStrain is a tool for analysis of co-occurring genome populations from metagenomes that allows highly accurate genome comparisons, analysis of coverage, microdiversity, and linkage, and sensitive SNP detection with gene localization and synonymous non-synonymous identification

Source code is available on GitHub.

Publication is available in Nature Biotechnology and on bioRxiv

See links to the left for Installation instructions

Bugs reports and feature requests can be submitted through GitHub.

InStrain was developed by Matt Olm and Alex Crits-Christoph in the Banfield Lab at the University of California, Berkeley.