recipe coverageanomalyscanner

Application to find local anomalies in read coverage and to predict putative SV events.

Homepage:

https://github.com/rki-mf1/CoverageAnomalyScanner

License:

GPL-3.0 license

Recipe:

/coverageanomalyscanner/meta.yaml

package coverageanomalyscanner

versions:

0.2.3-2,  0.2.3-1,  0.2.3-0

depends bzip2:

>=1.0.8,<2.0a0

depends libcurl:

>=8.0.1,<9.0a0

depends libdeflate:

>=1.18,<1.19.0a0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

depends xz:

>=5.2.6,<6.0a0

depends zlib:

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 coverageanomalyscanner

and update with::

   mamba update coverageanomalyscanner

To create a new environment, run:

mamba create --name myenvname coverageanomalyscanner

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/coverageanomalyscanner:<tag>

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

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