target

DOI: 10.18129/B9.bioc.target    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see target.

Predict Combined Function of Transcription Factors

Bioconductor version: 3.13

Implement the BETA algorithm for infering direct target genes from DNA-binding and perturbation expression data Wang et al. (2013) . Extend the algorithm to predict the combined function of two DNA-binding elements from comprable binding and expression data.

Author: Mahmoud Ahmed [aut, cre]

Maintainer: Mahmoud Ahmed <mahmoud.s.fahmy at students.kasralainy.edu.eg>

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("target")

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("target")

 

HTML	R Script	Using target to predict combined binding
HTML	R Script	Using the target package
PDF		Reference Manual
Text		NEWS

Details

biocViews	Software, StatisticalMethod, Transcription
Version	1.6.0
In Bioconductor since	BioC 3.10 (R-3.6) (2 years)
License	GPL-3
Depends	R (>= 3.6)
Imports	BiocGenerics, GenomicRanges, IRanges, matrixStats, methods, stats, graphics, shiny
LinkingTo
Suggests	testthat (>= 2.1.0), knitr, rmarkdown, shinytest, shinyBS, covr
SystemRequirements
Enhances
URL	https://github.com/MahShaaban/target
BugReports	https://github.com/MahShaaban/target/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	target_1.6.0.tar.gz
Windows Binary	target_1.6.0.zip
macOS 10.13 (High Sierra)	target_1.6.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/target
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/target
Package Short Url	https://bioconductor.org/packages/target/
Package Downloads Report	Download Stats