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>

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

Installation

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


if (!require("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")
RNAinteract PDF R Script
Reference Manual PDF

Details

biocViews CellBasedAssays, ImmunoOncology, Preprocessing, QualityControl, Software, Visualization
Version 1.32.0
In Bioconductor since BioC 2.8 (R-2.13) (13 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)
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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
Bioc Package Browser https://code.bioconductor.org/browse/RNAinteract/
Package Short Url https://bioconductor.org/packages/RNAinteract/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive