recipe vsnp

Rapidly call, validate, and compare SNPs from FASTQ files in a timely manner utilizing large data sets.

Homepage

https://github.com/USDA-VS/vSNP

License

GPL3

Recipe

/vsnp/meta.yaml

package vsnp

Versions

2.03-0, 0.2.02-0, 0.2.01-0, 0.2.0-0

Depends

• abyss

• biopython

• bwa

• dask

• freebayes

• humanize

• matplotlib

• pandas

• picard

• py-cpuinfo

• pysam

• python >=3.7

• pyvcf

• raxml

• regex

• samtools

• scikit-allel

• vcflib

• xlrd

• xlsxwriter

Required By

Installation

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

conda install vsnp

and update with:

conda update vsnp

or use the docker container:

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

(see vsnp/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/vsnp/README.html)