This is the development version of SPONGE; for the stable release version, see SPONGE.
Sparse Partial Correlations On Gene ExpressionBioconductor version: Development (3.22)
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.
Author: Markus List [aut, cre] ORCID: 0000-0002-0941-4168 , Markus Hoffmann [aut] ORCID: 0000-0002-1920-288X , Lena Strasser [aut] ORCID: 0009-0007-7881-6818
Maintainer: Markus List <markus.list at tum.de>
Citation (from within R, entercitation("SPONGE")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("SPONGE")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SPONGE")Follow Installation instructions to use this package in your R session.
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