recipe qualimap

Quality control of alignment sequencing data and its derivatives like feature counts

Homepage:

http://qualimap.bioinfo.cipf.es/

License:

GPL-2.0-or-later

Recipe:

/qualimap/meta.yaml

Links:

biotools: qualimap

package qualimap

versions:

2.3-0,  2.2.2d-2,  2.2.2d-1,  2.2.2d-0,  2.2.2c-1,  2.2.2c-0,  2.2.2b-1,  2.2.2b-0,  2.2.2a-3, 

2.3-0,  2.2.2d-2,  2.2.2d-1,  2.2.2d-0,  2.2.2c-1,  2.2.2c-0,  2.2.2b-1,  2.2.2b-0,  2.2.2a-3,  2.2.2a-2,  2.2.2a-1,  2.2.2a-0,  2.2-0,  2.1.3-1,  2.1.3-0,  2.1.1-1,  2.1.1-0

depends bioconductor-noiseq:

depends bioconductor-rsamtools:

depends bioconductor-rtracklayer:

depends fonts-conda-ecosystem:

depends openjdk:

depends r-optparse:

depends r-xml:

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 qualimap

and update with::

   mamba update qualimap

To create a new environment, run:

mamba create --name myenvname qualimap

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/qualimap:<tag>

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

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