- Home
- Bioconductor 3.5
- Software Packages
- Roleswitch
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Roleswitch")
In most cases, you don't need to download the package archive at all.
Roleswitch
|
|
|
|
|
Infer miRNA-mRNA interactions using paired expression data from a single sample
Bioconductor version: Release (3.5)
Infer Probabilities of MiRNA-mRNA Interaction Signature (ProMISe) using paired expression data from a single sample. Roleswitch operates in two phases by inferring the probability of mRNA (miRNA) being the targets ("targets") of miRNA (mRNA), taking into account the expression of all of the mRNAs (miRNAs) due to their potential competition for the same miRNA (mRNA). Due to dynamic miRNA repression in the cell, Roleswitch assumes that the total transcribed mRNA levels are higher than the observed (equilibrium) mRNA levels and iteratively updates the total transcription of each mRNA targets based on the above inference. NB: in the paper, we used ProMISe as both the model name and inferred score name.
Author: Yue Li
Maintainer: Yue Li <yueli at cs.toronto.edu>
Citation (from within R,
enter citation("Roleswitch")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Roleswitch")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("Roleswitch")
| R Script | Roleswitch | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Software, miRNA |
| Version | 1.14.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (4 years) |
| License | GPL-2 |
| Depends | R (>= 2.10), pracma, reshape, plotrix, microRNA, biomaRt, Biostrings, Biobase, DBI |
| Imports | |
| LinkingTo | |
| Suggests | ggplot2 |
| SystemRequirements | |
| Enhances | |
| URL | http://www.cs.utoronto.ca/~yueli/roleswitch.html |
| Depends On Me | |
| Imports Me | miRLAB |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | Roleswitch_1.14.0.tar.gz |
| Windows Binary | Roleswitch_1.14.0.zip |
| Mac OS X 10.11 (El Capitan) | Roleswitch_1.14.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Roleswitch |
| Package Short Url | http://bioconductor.org/packages/Roleswitch/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
