recipe msisensor

MSIsensor is a C++ program to detect replication slippage variants at microsatellite regions, and differentiate them as somatic or germline.

Homepage:

https://github.com/ding-lab/msisensor

License:

MIT

Recipe:

/msisensor/meta.yaml

package msisensor

versions:

0.5-7,  0.5-6,  0.5-5,  0.5-4,  0.5-3,  0.5-2,  0.5-1,  0.5-0

depends _openmp_mutex:

>=4.5

depends bamtools:

>=2.5.2,<2.6.0a0

depends libgcc:

>=13

depends libgomp:

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends ncurses:

>=6.5,<7.0a0

depends zlib:

requirements:

additional platforms:

linux-aarch64

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

and update with::

   mamba update msisensor

To create a new environment, run:

mamba create --name myenvname msisensor

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:<tag>

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

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