recipe stringmlst

Fast k-mer based tool for multi locus sequence typing (MLST) directly from genome sequencing reads

Homepage

https://github.com/jordanlab/stringMLST

License

CC BY-NC-SA 4.0

Recipe

/stringmlst/meta.yaml

package stringmlst

(downloads) docker_stringmlst

Versions

0.6.2-0, 0.6.1-0, 0.5.1-0, 0.5.1a-1, 0.5.1a-0, 0.4.2-0, 0.4.1-0, 0.4-0, 0.3.7-0, 0.3.6.1-0

Depends bedtools

Depends bwa

Depends lxml

Depends pyfaidx

Depends python

>=3.6,<3.7.0a0

Depends samtools

>=1.0

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install stringmlst

and update with:

conda update stringmlst

or use the docker container:

docker pull quay.io/biocontainers/stringmlst:<tag>

(see stringmlst/tags for valid values for <tag>)