RNAinteract

DOI: 10.18129/B9.bioc.RNAinteract    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see RNAinteract.

Estimate Pairwise Interactions from multidimensional features

Bioconductor version: 3.9

RNAinteract estimates genetic interactions from multi-dimensional read-outs like features extracted from images. The screen is assumed to be performed in multi-well plates or similar designs. Starting from a list of features (e.g. cell number, area, fluorescence intensity) per well, genetic interactions are estimated. The packages provides functions for reporting interacting gene pairs, plotting heatmaps and double RNAi plots. An HTML report can be written for quality control and analysis.

Author: Bernd Fischer <b.fischer at dkfz.de>

Maintainer: Bernd Fischer <b.fischer at dkfz.de>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("RNAinteract")

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("RNAinteract")

 

PDF	R Script	RNAinteract
PDF		Reference Manual

Details

biocViews	CellBasedAssays, ImmunoOncology, Preprocessing, QualityControl, Software, Visualization
Version	1.32.0
In Bioconductor since	BioC 2.8 (R-2.13) (8.5 years)
License	Artistic-2.0
Depends	R (>= 2.12.0), abind, locfit, Biobase
Imports	RColorBrewer, ICS, ICSNP, cellHTS2, geneplotter, gplots, grid, hwriter, lattice, latticeExtra, limma, methods, splots(>= 1.13.12)
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me	RNAinteractMAPK
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	RNAinteract_1.32.0.tar.gz
Windows Binary	RNAinteract_1.32.0.zip
Mac OS X 10.11 (El Capitan)	RNAinteract_1.32.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/RNAinteract
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RNAinteract
Package Short Url	https://bioconductor.org/packages/RNAinteract/
Package Downloads Report	Download Stats