recipe tb-profiler

Profiling tool for Mycobacterium tuberculosis to detect drug resistance and lineage from WGS data

Homepage

https://github.com/jodyphelan/TBProfiler

License

GPL3

Recipe

/tb-profiler/meta.yaml

Links

doi: 10.1186/s13073-019-0650-x

package tb-profiler

Versions

2.8.6-0, 2.8.5-0, 2.8.4-0, 2.8.3-0, 2.8.2-0, 2.8.1-0, 2.8.0-1, 2.8.0-0, 2.7.4-0, 2.7.3-0, 2.7.2-0, 2.7.1-0, 2.7-0, 2.6.1-2, 2.6.1-1, 2.6.1-0, 2.6-0, 2.5-1, 2.5-0, 2.4-0, 2.3-0, 2.2-1, 2.2-0, 2.1-2, 2.1-1, 2.1-0, 2.0-0

Depends

• bcftools >=1.9

• bedtools

• biopython

• bowtie2

• bwa

• delly

• gatk4

• git

• minimap2

• parallel

• python

• python >=3.6

• samtools >=1.9

• tqdm

• trimmomatic

Required By

Installation

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

conda install tb-profiler

and update with:

conda update tb-profiler

or use the docker container:

docker pull quay.io/biocontainers/tb-profiler:<tag>

(see tb-profiler/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/tb-profiler/README.html)