seroba

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SeroBA is a k-mer based Pipeline to identify the Serotype from Illumina NGS reads for given references.

Home https://github.com/sanger-pathogens/seroba
Versions 1.0.0
License GPL3.0
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/seroba

SeroBA is a k-mer based Pipeline to identify the Serotype from Illumina NGS reads for given references. You can use SeroBA to download references from (https://github.com/phe-bioinformatics/PneumoCaT) to do identify the capsular type of Streptococcus pneumoniae.

Installation

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

conda install seroba

and update with:

conda update seroba

docker

A Docker container is available at https://quay.io/repository/biocontainers/seroba.