recipe hmnqc

Compute differents metrics about quality, check identity and coverage from high-throughput sequencing provided by targeted NGS

Homepage:

https://github.com/guillaume-gricourt/HmnQc

License:

MIT

Recipe:

/hmnqc/meta.yaml

package hmnqc

versions:

0.5.1-0

depends biopython:

depends cnvkit:

depends openpyxl:

depends openssl:

>=1.1.0,<=1.1.1

depends pandas:

depends pysam:

depends python:

depends pyyaml:

depends xlsxwriter:

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 hmnqc

and update with::

   mamba update hmnqc

To create a new environment, run:

mamba create --name myenvname hmnqc

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/hmnqc:<tag>

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

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Link to this page

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