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miRSM

Inferring miRNA sponge modules in heterogeneous data


Bioconductor version: Release (3.18)

The package aims to identify miRNA sponge modules in heterogeneous data. It provides several functions to study miRNA sponge modules, including popular methods for inferring gene modules (candidate miRNA sponge modules), and a function to identify miRNA sponge modules, as well as several functions to conduct modular analysis of miRNA sponge modules.

Author: Junpeng Zhang [aut, cre]

Maintainer: Junpeng Zhang <zhangjunpeng411 at gmail.com>

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

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("miRSM")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews BiomedicalInformatics, Clustering, GeneExpression, GeneRegulation, GeneSetEnrichment, GeneTarget, Microarray, Software
Version 1.20.0
In Bioconductor since BioC 3.8 (R-3.5) (5.5 years)
License GPL-3
Depends R (>= 3.5.0)
Imports WGCNA, flashClust, dynamicTreeCut, GFA, igraph, linkcomm, MCL, NMF, biclust, iBBiG, fabia, BicARE, isa2, s4vd, BiBitR, rqubic, Biobase, PMA, stats, dbscan, subspace, mclust, SOMbrero, ppclust, miRspongeR, Rcpp, utils, SummarizedExperiment, GSEABase, org.Hs.eg.db, MatrixCorrelation, energy
System Requirements
URL https://github.com/zhangjunpeng411/miRSM
Bug Reports https://github.com/zhangjunpeng411/miRSM/issues
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Suggests BiocStyle, knitr, rmarkdown, testthat
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Package Archives

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

Source Package
Windows Binary miRSM_1.20.0.zip
macOS Binary (x86_64) miRSM_1.20.0.tgz
macOS Binary (arm64) miRSM_1.20.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/miRSM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/miRSM
Bioc Package Browser https://code.bioconductor.org/browse/miRSM/
Package Short Url https://bioconductor.org/packages/miRSM/
Package Downloads Report Download Stats