recipe cligv

command line Interactive Genome Viewer

Homepage:

https://github.com/jonasfreudig/cligv

License:

MIT / MIT

Recipe:

/cligv/meta.yaml

clIGV (command line Interactive Genome Viewer) is a fast, interactive genome browser for the terminal. It allows visualization of genomic sequences, variants from VCF files, and alignments from BAM files, all with a simple interface directly in your terminal.

package cligv

(downloads) docker_cligv

versions:

0.1.0-0

depends pysam:

>=0.19.0

depends python:

>=3.7

depends rich:

>=10.0.0

requirements:

additional platforms:

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 cligv

and update with::

   mamba update cligv

To create a new environment, run:

mamba create --name myenvname cligv

with myenvname being 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/cligv:<tag>

(see `cligv/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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