nem

Nested Effects Models to reconstruct phenotypic hierarchies

The package 'nem' allows to reconstruct features of pathways from the nested structure of perturbation effects. It takes as input (1.) a set of pathway components, which were perturbed, and (2.) high-dimensional phenotypic readout of these perturbations (e.g. gene expression or morphological profiles). The output is a directed graph representing the phenotypic hierarchy.

Author	Florian Markowetz, with contributions from Tim Beissbarth and Claudio Lottaz
Maintainer	Florian Markowetz

Vignettes (Documentation)

Package Downloads

markowetz-thesis-2006.pdf

nem.pdf

Source	nem_1.2.0.tar.gz
Windows binary	nem_1.2.0.zip
OS X binary	nem_1.2.0.tgz

Details

biocViews	Microarray , Statistics , GraphsAndNetworks , Pathways
Depends	R, e1071, graph, Rgraphviz, RBGL
Suggests	Biobase
Imports
SystemRequirements
License	GPL version 2.0 or newer
URL	http://www.bioconductor.org
dependsOnMe
suggestsMe