miRSM
Inferring miRNA sponge modules in heterogeneous data
Bioconductor version: Release (3.20)
The package aims to identify miRNA sponge or ceRNA modules in heterogeneous data. It provides several functions to study miRNA sponge modules at single-sample and multi-sample levels, including popular methods for inferring gene modules (candidate miRNA sponge or ceRNA modules), and two functions to identify miRNA sponge modules at single-sample and multi-sample levels, as well as several functions to conduct modular analysis of miRNA sponge modules.
Author: Junpeng Zhang [aut, cre]
Maintainer: Junpeng Zhang <zjp at dali.edu.cn>
citation("miRSM")):
Installation
To install this package, start R (version "4.4") 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
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("miRSM")| miRSM: inferring miRNA sponge modules in heterogeneous data | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BiomedicalInformatics, Clustering, GeneExpression, GeneRegulation, GeneSetEnrichment, GeneTarget, Microarray, Software |
| Version | 2.2.0 |
| In Bioconductor since | BioC 3.8 (R-3.5) (6 years) |
| License | GPL-3 |
| Depends | R (>= 4.4.0) |
| Imports | WGCNA, flashClust, dynamicTreeCut, GFA, igraph, linkcomm, MCL, fabia, NMF, biclust, iBBiG, BicARE, isa2, s4vd, BiBitR, rqubic, Biobase, PMA, stats, dbscan, subspace, mclust, SOMbrero, ppclust, Rcpp, utils, SummarizedExperiment, GSEABase, org.Hs.eg.db, clusterProfiler, ReactomePA, DOSE, MatrixCorrelation, energy |
| System Requirements | |
| URL | https://github.com/zhangjunpeng411/miRSM |
| Bug Reports | https://github.com/zhangjunpeng411/miRSM/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | miRSM_2.2.0.tar.gz |
| Windows Binary (x86_64) | miRSM_2.2.0.zip |
| macOS Binary (x86_64) | miRSM_2.2.0.tgz |
| macOS Binary (arm64) | miRSM_2.2.0.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 |