recipe checkqc

A simple program to parse Illumina NGS data and check it for quality criteria.

Homepage:

https://www.github.com/Molmed/checkQC

Documentation:

https://checkqc.readthedocs.io/en/latest/

License:

GPL3 / GPLv3

Recipe:

/checkqc/meta.yaml

package checkqc

versions:

4.0.7-0,  4.0.6-0,  4.0.5-0,  4.0.4-0,  4.0.1-0,  3.8.2-1,  3.8.2-0,  3.8.1-0,  3.8.0-0, 

4.0.7-0,  4.0.6-0,  4.0.5-0,  4.0.4-0,  4.0.1-0,  3.8.2-1,  3.8.2-0,  3.8.1-0,  3.8.0-0,  3.7.0-0,  3.6.6-0,  3.6.5-0,  3.6.4-0,  3.6.3-0,  3.6.1-0

depends click:

>=8.1.1

depends illumina-interop:

>=1.2.4

depends jsonschema:

depends numpy:

>=1.26.4

depends pandas:

>=2.2.2

depends python:

>=3.6,<3.11

depends pyyaml:

>=6.0

depends sample-sheet:

>=0.13.0

depends tornado:

>=6.3.2

depends xmltodict:

>=0.13.0

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 checkqc

and update with::

   mamba update checkqc

To create a new environment, run:

mamba create --name myenvname checkqc

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/checkqc:<tag>

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

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