Registration and Call for Abstracts Open for Bioc2024

TargetScore

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


Bioconductor version: Release (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")

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 1.40.0
In Bioconductor since BioC 2.13 (R-3.0) (10.5 years)
License GPL-2
Depends pracma, Matrix
Imports
System Requirements
URL http://www.cs.utoronto.ca/~yueli/software.html
See More
Suggests TargetScoreData, gplots, Biobase, GEOquery
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me TargetScoreData
Links To Me
Build Report Build Report

Package Archives

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

Source Package TargetScore_1.40.0.tar.gz
Windows Binary TargetScore_1.40.0.zip (64-bit only)
macOS Binary (x86_64) TargetScore_1.40.0.tgz
macOS Binary (arm64) TargetScore_1.40.0.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