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pyMLST container

Main tool: pyMLST

Code repository: https://github.com/bvalot/pyMLST

Additional tools:

  • MAFFT : v7.490
  • KMA : 1.3.28
  • BLAT : v.35

Basic information on how to use this tool:

  • executables: pyMLST, claMLST, wgMLST
  • help: -h
  • version: -v
  • description: A Python Mlst Local Search Tool.

Additional information:

This container does not have any database. However, it can download it via app.

Full documentation: https://pymlst.readthedocs.io/en/latest/

Example Usage

## cg/wgMLST
# initialize database
wgMLST import DATABASE
# add interested strain
wgMLST add DATABASE GENOME
# cgMLST distance
wgMLST distance DATABASE

# MLST
claMLST import DATABASE
claMLST search DATABASE GENOME