TargetScore

DOI: 10.18129/B9.bioc.TargetScore    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see TargetScore.

TargetScore: Infer microRNA targets using microRNA-overexpression data and sequence information

Bioconductor version: 3.8

Infer the posterior distributions of microRNA targets by probabilistically modelling the likelihood microRNA-overexpression fold-changes and sequence-based scores. Variaitonal Bayesian Gaussian mixture model (VB-GMM) is applied to log fold-changes and sequence scores to obtain the posteriors of latent variable being the miRNA targets. The final targetScore is computed as the sigmoid-transformed fold-change weighted by the averaged posteriors of target components over all of the features.

Author: Yue Li

Maintainer: Yue Li <yueli at cs.toronto.edu>

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

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("TargetScore")

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("TargetScore")

 

PDF R Script TargetScore: Infer microRNA targets using microRNA-overexpression data and sequence information
PDF   Reference Manual
Text   NEWS

Details

biocViews Software, miRNA
Version 1.20.0
In Bioconductor since BioC 2.13 (R-3.0) (5.5 years)
License GPL-2
Depends pracma, Matrix
Imports
LinkingTo
Suggests TargetScoreData, gplots, Biobase, GEOquery
SystemRequirements
Enhances
URL http://www.cs.utoronto.ca/~yueli/software.html
Depends On Me
Imports Me
Suggests Me TargetScoreData
Links To Me
Build Report  

Package Archives

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

Source Package TargetScore_1.20.0.tar.gz
Windows Binary TargetScore_1.20.0.zip
Mac OS X 10.11 (El Capitan) TargetScore_1.20.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TargetScore
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TargetScore
Package Short Url http://bioconductor.org/packages/TargetScore/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: