recipe bioconductor-degseq

Identify Differentially Expressed Genes from RNA-seq data

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/DEGseq.html

License:

LGPL-3-or-above

Recipe:

/bioconductor-degseq/meta.yaml

Links:

biotools: degseq, doi: 10.1093/bioinformatics/btp612

DEGseq is an R package to identify differentially expressed genes from RNA-Seq data.

package bioconductor-degseq

(downloads) docker_bioconductor-degseq

versions:
1.60.0-0,  1.56.1-1,  1.56.1-0,  1.54.0-0,  1.52.0-1,  1.52.0-0,  1.48.0-2,  1.48.0-1,  1.48.0-0, 

1.60.0-0,  1.56.1-1,  1.56.1-0,  1.54.0-0,  1.52.0-1,  1.52.0-0,  1.48.0-2,  1.48.0-1,  1.48.0-0,  1.46.0-0,  1.44.0-1,  1.44.0-0,  1.42.0-0,  1.40.0-0,  1.38.0-1,  1.38.0-0,  1.36.1-0,  1.34.1-0,  1.32.0-0,  1.30.0-0

depends bioconductor-qvalue:

>=2.38.0,<2.39.0

depends bioconductor-qvalue:

>=2.38.0,<2.39.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc:

>=13

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx:

>=13

depends r-base:

>=4.4,<4.5.0a0

requirements:

additional platforms:
linux-aarch64

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 bioconductor-degseq

and update with::

   mamba update bioconductor-degseq

To create a new environment, run:

mamba create --name myenvname bioconductor-degseq

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/bioconductor-degseq:<tag>

(see `bioconductor-degseq/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-degseq/README.html)