To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SPONGE")

In most cases, you don't need to download the package archive at all.

SPONGE

DOI: 10.18129/B9.bioc.SPONGE    

This is the development version of SPONGE; for the stable release version, see SPONGE.

Sparse Partial Correlations On Gene Expression

Bioconductor version: Development (3.7)

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.

Author: Markus List, Marcel Schulz

Maintainer: Markus List <markus.list at mpi-inf.mpg.de>

Citation (from within R, enter citation("SPONGE")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SPONGE")

Documentation

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PDF   Reference Manual
Text   NEWS

Details

biocViews GeneExpression, GeneRegulation, NetworkInference, Regression, Software, SystemsBiology, Transcription, Transcriptomics
Version 1.1.1
License GPL (>=3)
Depends R (>= 3.4)
Imports Biobase, stats, ppcor, logging, foreach, doRNG, data.table, bigmemory, MASS, expm, gRbase, glmnet, igraph, iterators
LinkingTo
Suggests testthat, knitr, rmarkdown, visNetwork, ggplot2, ggrepel, gridExtra, digest, doParallel
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package SPONGE_1.1.1.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) SPONGE_1.1.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/SPONGE
Package Short Url http://bioconductor.org/packages/SPONGE/
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