recipe r-ccqtl

CCQTL is a wrapper around the R/qtl2 (Broman et al, Genetics 2019 10.1534/genetics.118.301595) functions, with hard-coded parameters tailored for QTL mapping in the Collaborative Cross.

Homepage:

https://gitlab.pasteur.fr/cc-qtl/ccqtl

License:

GPL3 / GPL3

Recipe:

/r-ccqtl/meta.yaml

package r-ccqtl

versions:

0.0.1_beta.2-1,  0.0.1_beta.2-0,  0.0.1_beta.1-0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends r-argparse:

>=2.2.0

depends r-base:

>=4.2,<4.3.0a0

depends r-dplyr:

depends r-gtools:

depends r-qtl2:

0.30

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 r-ccqtl

and update with::

   mamba update r-ccqtl

To create a new environment, run:

mamba create --name myenvname r-ccqtl

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/r-ccqtl:<tag>

(see `r-ccqtl/tags`_ for valid values for ``<tag>``)

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