DOI: 10.18129/B9.bioc.SPONGE    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see SPONGE.

Sparse Partial Correlations On Gene Expression

Bioconductor version: 3.8

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, Azim Dehghani Amirabad, Dennis Kostka, Marcel H. Schulz

Maintainer: Markus List <markus.list at wzw.tum.de>

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


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biocViews GeneExpression, GeneRegulation, NetworkInference, Regression, Software, SystemsBiology, Transcription, Transcriptomics
Version 1.4.0
In Bioconductor since BioC 3.6 (R-3.4) (1.5 years)
License GPL (>=3)
Depends R (>= 3.4)
Imports Biobase, stats, ppcor, logging, foreach, doRNG, data.table, MASS, expm, gRbase, glmnet, igraph, iterators
Suggests testthat, knitr, rmarkdown, visNetwork, ggplot2, ggrepel, gridExtra, digest, doParallel, bigmemory
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Source Package SPONGE_1.4.0.tar.gz
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