recipe bioconductor-erssa

Empirical RNA-seq Sample Size Analysis

Homepage:

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

License:

GPL-3 | file LICENSE

Recipe:

/bioconductor-erssa/meta.yaml

The ERSSA package takes user supplied RNA-seq differential expression dataset and calculates the number of differentially expressed genes at varying biological replicate levels. This allows the user to determine, without relying on any a priori assumptions, whether sufficient differential detection has been acheived with their RNA-seq dataset.

package bioconductor-erssa

versions:

1.20.0-0,  1.18.0-0,  1.16.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-0, 

1.20.0-0,  1.18.0-0,  1.16.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.0.0-0

depends bioconductor-apeglm:

>=1.24.0,<1.25.0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends bioconductor-deseq2:

>=1.42.0,<1.43.0

depends bioconductor-edger:

>=4.0.0,<4.1.0

depends r-base:

>=4.3,<4.4.0a0

depends r-ggplot2:

>=3.0.0

depends r-plyr:

>=1.8.4

depends r-rcolorbrewer:

>=1.1-2

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-erssa

and update with::

   mamba update bioconductor-erssa

To create a new environment, run:

mamba create --name myenvname bioconductor-erssa

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-erssa:<tag>

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

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