recipe snpsplit

SNPsplit is an allele-specific alignment sorter which is designed to read in alignment files in SAM/BAM format and determine the allelic origin of reads that cover known SNP positions.

Homepage:

https://github.com/FelixKrueger/SNPsplit

License:

GPL3 / GPL-3.0-or-later

Recipe:

/snpsplit/meta.yaml

Links:

doi: 10.12688/f1000research.9037.2

package snpsplit

(downloads) docker_snpsplit

versions:

0.6.0-0,  0.5.0-0,  0.4.0-1,  0.4.0-0,  0.3.4-2,  0.3.4-1,  0.3.4-0,  0.3.3-1,  0.3.3-0

depends perl:

depends samtools:

>=1.7

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 snpsplit

and update with::

   mamba update snpsplit

To create a new environment, run:

mamba create --name myenvname snpsplit

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/snpsplit:<tag>

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

Download stats

Link to this page

Render an install-with-bioconda 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/snpsplit/README.html)