sistr

Purpose

Sistr (Salmonella In Silico Typing Resource) is a software for Serovar predictions from whole-genome sequence assemblies by determination of antigen gene and cgMLST gene alleles using BLAST. Mash MinHash can also be used for serovar prediction.

Note

Software page: https://github.com/peterk87/sistr_cmd

Input/Output type

  • Input type: Fasta
  • Output type: None

Note

The default input parameter for fasta data is --fasta.

Parameters

None

Published results

  • results/typing/sistr: Stores the results of sistr in a tab file

Published reports

None.

Default directives

  • cpus: 4
  • memory: 4GB
  • container: ummidock/sistr_cmd
  • version: 1.0.2