recipe minvar

A tool to detect minority variants in HIV-1 and HCV populations

Homepage:

https://git.io/minvar

License:

Custom

Recipe:

/minvar/meta.yaml

package minvar

versions:

2.2.2-1,  2.2.2-0,  2.2.1-0,  2.2-0,  2.1.3-0,  2.1.2-1,  2.1.2-0,  2.1.1-2,  2.1.1-1, 

2.2.2-1,  2.2.2-0,  2.2.1-0,  2.2-0,  2.1.3-0,  2.1.2-1,  2.1.2-0,  2.1.1-2,  2.1.1-1,  2.1.1-0,  2.1-1,  2.1-0,  2.0-1,  2.0-0,  1.2b-1,  1.2b-0,  1.2a3-1,  1.2a3-0

depends bedtools:

depends biopython:

depends blast:

>=2.3

depends bwa:

depends emboss:

depends htslib:

depends lofreq:

>=2.1.3.1

depends pandas:

depends pandoc:

depends python:

>=3

depends samtools:

>=1.3

depends seqtk:

depends setuptools_scm_git_archive:

depends sierrapy:

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 minvar

and update with::

   mamba update minvar

To create a new environment, run:

mamba create --name myenvname minvar

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/minvar:<tag>

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

Download stats

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/minvar/README.html)