miRsponge
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see miRsponge (renamed to miRspongeR) .
Identification and analysis of miRNA sponge interaction networks and modules
Bioconductor version: 3.9
The name of the miRsponge package has been changed into "miRspongeR". Future updates will be seen in the miRspongeR package (http://bioconductor.org/packages/miRspongeR/). This package provides several functions to study miRNA sponge (also called ceRNA or miRNA decoy), including popular methods for identifying miRNA sponge interactions, and the integrative method to integrate miRNA sponge interactions from different methods, as well as the functions to validate miRNA sponge interactions, and infer miRNA sponge modules, conduct enrichment analysis of modules, and conduct survival analysis of modules.
Author: Junpeng Zhang
Maintainer: Junpeng Zhang <zhangjunpeng_411 at yahoo.com>
citation("miRsponge")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("miRsponge")
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("miRsponge")| miRsponge: identification and analysis of miRNA sponge interaction networks and modules | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | BiomedicalInformatics, GeneExpression, Microarray, NetworkEnrichment, Software, Survival |
| Version | 1.10.0 |
| In Bioconductor since | BioC 3.6 (R-3.4) (6.5 years) |
| License | GPL-3 |
| Depends | R (>= 3.5.0) |
| Imports | corpcor, parallel, igraph, MCL, clusterProfiler, ReactomePA, DOSE, survival, grDevices, graphics, stats, varhandle, linkcomm, utils, Rcpp, org.Hs.eg.db |
| System Requirements | |
| URL |
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 | miRsponge_1.10.0.tar.gz |
| Windows Binary | miRsponge_1.10.0.zip |
| Mac OS X 10.11 (El Capitan) | miRsponge_1.10.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/miRsponge |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/miRsponge |
| Package Short Url | https://bioconductor.org/packages/miRsponge/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |