This is the development version of ceRNAnetsim; for the stable release version, see ceRNAnetsim.
Regulation Simulator of Interaction between miRNA and Competing RNAs (ceRNA)Bioconductor version: Development (3.22)
This package simulates regulations of ceRNA (Competing Endogenous) expression levels after a expression level change in one or more miRNA/mRNAs. The methodolgy adopted by the package has potential to incorparate any ceRNA (circRNA, lincRNA, etc.) into miRNA:target interaction network. The package basically distributes miRNA expression over available ceRNAs where each ceRNA attracks miRNAs proportional to its amount. But, the package can utilize multiple parameters that modify miRNA effect on its target (seed type, binding energy, binding location, etc.). The functions handle the given dataset as graph object and the processes progress via edge and node variables.
Author: Selcen Ari Yuka [aut, cre] ORCID: 0000-0002-0028-2453 , Alper Yilmaz [aut] ORCID: 0000-0002-8827-4887
Maintainer: Selcen Ari Yuka <selcenarii at gmail.com>
Citation (from within R, entercitation("ceRNAnetsim")): 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("ceRNAnetsim")
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("ceRNAnetsim")Follow Installation instructions to use this package in your R session.
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