recipe vafator

VAFator annotates the variants in a VCF file with technical annotations extracted from one or more BAM alignment files. We implement a set of basic coverage annotations and also more sophisticated published annotations used to assess the quality of every variant call.

Homepage:

https://github.com/tron-bioinformatics/vafator

License:

MIT / MIT

Recipe:

/vafator/meta.yaml

Links:

doi: 10.5281/zenodo.6976425

package vafator

Versions:

2.1.0-0,  2.0.3-0,  2.0.2-0,  2.0.1-0,  1.3.2-0,  1.3.1-0,  1.3.0-0,  1.2.6-0,  1.2.5-0, 

2.1.0-0,  2.0.3-0,  2.0.2-0,  2.0.1-0,  1.3.2-0,  1.3.1-0,  1.3.0-0,  1.2.6-0,  1.2.5-0,  1.2.4-0,  1.1.4-0,  1.1.2-0,  1.1.0-0,  0.4.0-0,  0.3.4-0,  0.3.3-0

Depends:

• cyvcf2 >=0.30.14,<0.31

• logzero >=1.7.0,<1.8

• pandas >=1.3.3,<1.4

• pybedtools >=0.9.0,<0.10

• pysam >=0.19.1,<0.20

• python >=3.7,<=3.9

• scipy >=1.8.1,<1.9

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install vafator

and update with:

conda update vafator

or use the docker container:

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

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

Download stats

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