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.) phenotypic readout of these perturbations (e.g. gene expression, protein expression). The output is a directed graph representing the phenotypic hierarchy.
|Author||Holger Froehlich, Florian Markowetz, Achim Tresch, Theresa Niederberger, Christian Bender, Matthias Maneck, Claudio Lottaz, Tim Beissbarth|
|Bioconductor views||Bioinformatics GraphsAndNetworks Microarray NetworkInference Pathways SystemsBiology|
|Maintainer||Holger Froehlich <email@example.com>|
|License||GPL (>= 2)|
|Package repository||View on Bioconductor|
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