Software

ProPhyle

A metagenomic classifier. Written in Python. See http://prophyle.github.io.

RASE

Rapid prediction of antibiotic resistance. Lineage calling for identifying antibiotic resistant clones within minutes. Written in Python/Snakemake/Make. See https://github.com/c2-d2/rase.

DyMaS

A dynamic mapping simulator. Written in Python/Snakemake. See http://github.com/karel-brinda/dymas.

Ococo

An online variant and consensus caller. Written in C++. See http://github.com/karel-brinda/ococo.

ProPhex

An exact k-mer index based on the Burrows-Wheeler Transform. Written in C. See http://github.com/prophyle/prophex. 

RNFtools

A general framework to simulate sequencing reads and evaluate read mappers. Written in Snakemake/Python. See http://rnftools.github.io.