- recipe vcfkit
VCF-kit is a command-line based collection of utilities for performing analysis on Variant Call Format (VCF) files.
- Homepage:
- License:
MIT / MIT
- Recipe:
- package vcfkit¶
- versions:
0.2.9-0,0.2.8-0,0.1.6-4,0.1.6-3,0.1.6-2,0.1.6-0,0.0.4-0- depends awesome-slugify:
- depends bcftools:
>=1.3- depends biopython:
- depends blast:
>=2.2.31- depends bwa:
>=0.7.12- depends clint:
- depends cyvcf2:
>=0.6.5- depends docopt:
- depends intervaltree:
2.1.0- depends jinja2:
- depends matplotlib-base:
- depends muscle:
>=3.8.31- depends networkx:
1.11- depends numpy:
- depends python:
- depends requests:
- depends samtools:
>=1.3- depends scipy:
- depends tabulate:
- depends yahmm:
>=1.1.2- requirements:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install vcfkit and update with:: mamba update vcfkit
To create a new environment, run:
mamba create --name myenvname vcfkit
with
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/vcfkit:<tag> (see `vcfkit/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
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[](http://bioconda.github.io/recipes/vcfkit/README.html)
