target

Predict Combined Function of Transcription Factors

Bioconductor version: Release (3.20)

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>

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

Installation

To install this package, start R (version "4.4") and enter:


if (!require("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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Software, StatisticalMethod, Transcription
Version	1.20.0
In Bioconductor since	BioC 3.10 (R-3.6) (5 years)
License	GPL-3
Depends	R (>= 3.6)
Imports	BiocGenerics, GenomicRanges, IRanges, matrixStats, methods, stats, graphics, shiny
System Requirements
URL	https://github.com/MahShaaban/target
Bug Reports	https://github.com/MahShaaban/target/issues

Suggests	testthat (>= 2.1.0), knitr, rmarkdown, shinytest, shinyBS, covr
Linking To
Enhances
Depends On Me
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Build Report	Build Report

Package Archives

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

Source Package	target_1.20.0.tar.gz
Windows Binary (x86_64)	target_1.20.0.zip (64-bit only)
macOS Binary (x86_64)	target_1.20.0.tgz
macOS Binary (arm64)	target_1.19.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/target
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/target
Bioc Package Browser	https://code.bioconductor.org/browse/target/
Package Short Url	https://bioconductor.org/packages/target/
Package Downloads Report	Download Stats