recipe metasv

An accurate and integrative structural-variant caller for next generation sequencing

Homepage:

https://github.com/bioinform/metasv

License:

MIT

Recipe:

/metasv/meta.yaml

package metasv

versions:

0.5.4-4,  0.5.4-3,  0.5.4-2,  0.5.4-1,  0.5.4-0,  0.4.0-4,  0.4.0-3

depends age-metasv:

depends libgcc-ng:

>=10.3.0

depends pybedtools:

0.6.9

depends pysam:

0.7.7

depends python:

>=2.7,<2.8.0a0

depends python_abi:

2.7.* *_cp27mu

depends pyvcf:

0.6.7

depends spades:

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 metasv

and update with::

   mamba update metasv

To create a new environment, run:

mamba create --name myenvname metasv

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/metasv:<tag>

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

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