recipe bioconductor-specond

Condition specific detection from expression data

Homepage:

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

License:

LGPL (>=2)

Recipe:

/bioconductor-specond/meta.yaml

Links:

biotools: specond, doi: 10.1186/gb-2011-12-12-413

This package performs a gene expression data analysis to detect condition-specific genes. Such genes are significantly up- or down-regulated in a small number of conditions. It does so by fitting a mixture of normal distributions to the expression values. Conditions can be environmental conditions, different tissues, organs or any other sources that you wish to compare in terms of gene expression.

package bioconductor-specond

versions:

1.56.0-0,  1.54.0-0,  1.52.0-0,  1.48.0-0,  1.46.0-0,  1.44.0-1,  1.44.0-0,  1.42.0-0,  1.40.0-0, 

1.56.0-0,  1.54.0-0,  1.52.0-0,  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,  1.36.0-0,  1.34.0-0,  1.32.0-0,  1.30.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends r-base:

>=4.3,<4.4.0a0

depends r-fields:

depends r-hwriter:

>=1.1

depends r-mclust:

>=3.3.1

depends r-rcolorbrewer:

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-specond

and update with::

   mamba update bioconductor-specond

To create a new environment, run:

mamba create --name myenvname bioconductor-specond

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-specond:<tag>

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

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