recipe bioconductor-sponge

Sparse Partial Correlations On Gene Expression

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/SPONGE.html

License:

GPL (>=3)

Recipe:

/bioconductor-sponge/meta.yaml

This package provides methods to efficiently detect competitive endogeneous RNA interactions between two genes. Such interactions are mediated by one or several miRNAs such that both gene and miRNA expression data for a larger number of samples is needed as input. The SPONGE package now also includes spongEffects: ceRNA modules offer patient-specific insights into the miRNA regulatory landscape.

package bioconductor-sponge

Versions:

1.20.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.12.0-0,  1.10.0-0,  1.8.0-0,  1.6.1-0,  1.4.0-0

Depends:

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-biomart >=2.54.0,<2.55.0

• bioconductor-complexheatmap >=2.14.0,<2.15.0

• bioconductor-mirbaseconverter >=1.22.0,<1.23.0

• r-base >=4.2,<4.3.0a0

• r-caret

• r-cvms

• r-data.table

• r-dorng

• r-dplyr

• r-expm

• r-foreach

• r-ggplot2

• r-ggpubr

• r-ggridges

• r-glmnet

• r-grbase

• r-igraph

• r-iterators

• r-logging

• r-mass

• r-metbrewer

• r-ppcor

• r-randomforest

• r-rlang

• r-stringr

• r-tidyr

• r-tidyverse

• r-tnet

Required By:

• bioconductor-mirsponger

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-sponge

and update with:

conda update bioconductor-sponge

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-sponge:<tag>

(see bioconductor-sponge/tags for valid values for <tag>)

Download stats

Link to this page

Render an badge with the following MarkDown:

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