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TargetScore

This is the development version of TargetScore; for the stable release version, see TargetScore.

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

Bioconductor version: Development (3.18)

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 "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews Software, miRNA
Version 1.39.0
In Bioconductor since BioC 2.13 (R-3.0) (10 years)
License GPL-2
Depends pracma, Matrix
Imports
Linking To
Suggests TargetScoreData, gplots, Biobase, GEOquery
System Requirements
Enhances
URL http://www.cs.utoronto.ca/~yueli/software.html
See More
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_1.39.0.tar.gz
Windows Binary TargetScore_1.39.0.zip
macOS Binary (x86_64) TargetScore_1.39.0.tgz
macOS Binary (arm64) TargetScore_1.39.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TargetScore
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TargetScore
Bioc Package Browser https://code.bioconductor.org/browse/TargetScore/
Package Short Url https://bioconductor.org/packages/TargetScore/
Package Downloads Report Download Stats