RNAinteract

Estimate Pairwise Interactions from multidimensional features

Bioconductor version: 2.9

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 <bernd.fischer at embl.de>

Maintainer: Bernd Fischer <bernd.fischer at embl.de>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("RNAinteract")

To cite this package in a publication, start R and enter:

    citation("RNAinteract")

Documentation

PDF	R Script	RNAinteract
PDF		Reference Manual

Details

biocViews	CellBasedAssays, QualityControl, Preprocessing, Visualization
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)
Suggests
System Requirements
License	Artistic-2.0
URL
Depends On Me	RNAinteractMAPK
Imports Me
Suggests Me
Version	1.2.0
Since	Bioconductor 2.8 (R-2.13)

Package Downloads

Package Source	RNAinteract_1.2.0.tar.gz
Windows Binary	RNAinteract_1.2.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	RNAinteract_1.2.0.tgz
Package Downloads Report	Download Stats

Workflows »

Common Bioconductor workflows include:

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Hosting provided by Fred Hutchinson Cancer Research Center