recipe lofreq

A fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data

Homepage

http://csb5.github.io/lofreq/

License

MIT

Recipe

/lofreq/meta.yaml

package lofreq

Versions

2.1.5-2,  2.1.5-1,  2.1.5-0,  2.1.4-3,  2.1.4-2,  2.1.3.1-0,  2.1.2-0

Depends

• htslib >=1.10.2,<1.11.0a0

• libgcc-ng >=7.5.0

• python >=2.7,<2.8.0a0

• python_abi 2.7.* *_cp27mu

• samtools

• zlib >=1.2.11,<1.3.0a0

Required By

• somaticseq

• minvar

Installation

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

conda install lofreq

and update with:

conda update lofreq

or use the docker container:

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

(see lofreq/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/lofreq/README.html)