Short Read Sequence Typing for Bacterial Pathogens. This program 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.
module spider srst2 to find out what environment modules are available for this application.
- HPC_SRST2_DIR - installation directory
- HPC_SRST2_BIN - executable directory
If you publish research that uses srst2 you have to cite it as follows:
Inouye, Michael, et al. "SRST2: Rapid genomic surveillance for public health and hospital microbiology labs." Genome medicine 6.11 (2014): 90.