recipe msisensor-pro

Microsatellite Instability (MSI) detection using high-throughput sequencing data.

Homepage:

https://github.com/xjtu-omics/msisensor-pro

Documentation:

https://github.com/xjtu-omics/msisensor-pro/wiki

License:

Custom Licence

Recipe:

/msisensor-pro/meta.yaml

Links:

biotools: msisensor-pro, doi: 10.1016/j.gpb.2020.02.001

package msisensor-pro

(downloads) docker_msisensor-pro

versions:
1.3.0-1,  1.3.0-0,  1.2.2-0,  1.2.0-7,  1.2.0-6,  1.2.0-5,  1.2.0-4,  1.2.0-3,  1.2.0-2, 

1.3.0-1,  1.3.0-0,  1.2.2-0,  1.2.0-7,  1.2.0-6,  1.2.0-5,  1.2.0-4,  1.2.0-3,  1.2.0-2,  1.2.0-1,  1.2.0-0,  1.1.a-1,  1.1.a-0,  1.0.a-8,  1.0.a-7,  1.0.a-3,  1.0.a-2,  1.0.a-1,  1.0.a-0,  0.1.1-9,  0.1.1-8,  0.1.1-7,  0.1.1-6,  0.1.1-5,  0.1.1-0,  0.0.1-0,  v1.2.0-0

depends _openmp_mutex:

>=4.5

depends bzip2:

>=1.0.8,<2.0a0

depends htslib:

>=1.21,<1.23.0a0

depends libcurl:

>=8.11.1,<9.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

requirements:

additional platforms:
linux-aarch64,  osx-arm64

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 msisensor-pro

and update with::

   mamba update msisensor-pro

To create a new environment, run:

mamba create --name myenvname msisensor-pro

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/msisensor-pro:<tag>

(see `msisensor-pro/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/msisensor-pro/README.html)