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target

Predict Combined Function of Transcription Factors


Bioconductor version: Release (3.18)

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 "4.3") 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

Details

biocViews Software, StatisticalMethod, Transcription
Version 1.16.0
In Bioconductor since BioC 3.10 (R-3.6) (4.5 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
See More
Suggests testthat (>= 2.1.0), knitr, rmarkdown, shinytest, shinyBS, covr
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Package Archives

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

Source Package target_1.16.0.tar.gz
Windows Binary target_1.16.0.zip
macOS Binary (x86_64) target_1.16.0.tgz
macOS Binary (arm64) target_1.16.0.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