Description

Short Read Sequence Typing for Bacterial Pathogens is a program designed to take Illumina sequence data, a MLST database and/or a database of gene sequences (e.g. resistance genes, virulence genes, etc) and report the presence of STs and/or reference genes.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

Output

Name
Description
Pattern

gene_results ()

fullgene_results ()

mlst_results ()

pileup ()

sorted_bam ()

versions ()

Tools

srst2 Documentation

Short Read Sequence Typing for Bacterial Pathogens

https://github.com/katholt/srst2doi: 10.1186/s13073-014-0090-6License: BSD
Authors