SRST 2-0.2.0
:: DESCRIPTION
SRST is 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.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux/ Windows/MacOsX
- Python
- bowtie2
- SAMtools
:: DOWNLOAD
:: MORE INFORMATION
Citation
Genome Med. 2014 Nov 20;6(11):90. doi: 10.1186/s13073-014-0090-6. eCollection 2014.
SRST2: Rapid genomic surveillance for public health and hospital microbiology labs.
Inouye M, Dashnow H, Raven LA, Schultz MB, Pope BJ, Tomita T, Zobel J, Holt KE
BMC Genomics. 2012 Jul 24;13:338.
Short read sequence typing (SRST): multi-locus sequence types from short reads.
Inouye M, Conway TC, Zobel J, Holt KE.