TargetScore

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

Bioconductor version: Release (2.14)

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>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("TargetScore")

To cite this package in a publication, start R and enter:

    citation("TargetScore")

Documentation

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

Details

biocViews Software, miRNA
Version 1.2.0
In Bioconductor since BioC 2.13 (R-3.0)
License GPL-2
Depends pracma, Matrix
Imports
Suggests TargetScoreData, gplots, Biobase, GEOquery
System Requirements
URL http://www.cs.utoronto.ca/~yueli/software.html
Depends On Me
Imports Me
Suggests Me TargetScoreData

Package Downloads

Package Source TargetScore_1.2.0.tar.gz
Windows Binary TargetScore_1.2.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) TargetScore_1.2.0.tgz
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center