recipe bioconductor-dexma

Differential Expression Meta-Analysis

Homepage:

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

License:

GPL-2

Recipe:

/bioconductor-dexma/meta.yaml

performing all the steps of gene expression meta-analysis considering the possible existence of missing genes. It provides the necessary functions to be able to perform the different methods of gene expression meta-analysis. In addition, it contains functions to apply quality controls, download GEO datasets and show graphical representations of the results.

package bioconductor-dexma

versions:

1.10.6-0,  1.8.0-0,  1.6.0-0,  1.2.0-0,  1.0.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-dexmadata:

>=1.10.0,<1.11.0

depends bioconductor-geoquery:

>=2.70.0,<2.71.0

depends bioconductor-impute:

>=1.76.0,<1.77.0

depends bioconductor-limma:

>=3.58.0,<3.59.0

depends bioconductor-snpstats:

>=1.52.0,<1.53.0

depends bioconductor-sva:

>=3.50.0,<3.51.0

depends r-base:

>=4.3,<4.4.0a0

depends r-bnstruct:

depends r-pheatmap:

depends r-plyr:

depends r-rcolorbrewer:

depends r-scales:

depends r-swamp:

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 bioconductor-dexma

and update with::

   mamba update bioconductor-dexma

To create a new environment, run:

mamba create --name myenvname bioconductor-dexma

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-dexma:<tag>

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

Download stats

Link to this page

Render an 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-dexma/README.html)