target

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see target.

Predict Combined Function of Transcription Factors

Bioconductor version: 3.21

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 "4.5") 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 1.22.0

In Bioconductor since BioC 3.10 (R-3.6) (6 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

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Package Archives

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

Source Package target_1.22.0.tar.gz

Windows Binary (x86_64) target_1.22.0.zip

macOS Binary (x86_64) target_1.22.0.tgz

macOS Binary (arm64) target_1.22.0.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/

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