bmtagger

downloads

BMTagger aka Best Match Tagger is for removing human reads from metagenomics datasets

Home ftp://ftp.ncbi.nlm.nih.gov/pub/agarwala/bmtagger/
Versions 3.101
License Public Domain
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bmtagger

Installation

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

conda install bmtagger

and update with:

conda update bmtagger

Notes

You may find it necessary to create a bmtagger.conf file to specify paired or single-end searching. The file should contain the line ‘srprismopts=”-b 100000000 -n 5 -R 0 -r 1 -M 7168”’ along with ‘-p true’ or ‘-p false’ for paired, and single, respectively. This config file can be passed to bmtagger.sh via the ‘-C’ option.

docker

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