target

DOI: 10.18129/B9.bioc.target    

Predict Combined Function of Transcription Factors

Bioconductor version: Release (3.10)

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 "3.6") 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 1.0.0
In Bioconductor since BioC 3.10 (R-3.6) (< 6 months)
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_1.0.0.tar.gz
Windows Binary target_1.0.0.zip
Mac OS X 10.11 (El Capitan) target_1.0.0.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

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: