wTO: Computing Weighted Topological Overlaps (wTO) & Consensus wTO Network

Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks (Nowick et al. (2009) <doi:10.1073/pnas.0911376106>) given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks. More about the methodology can be found at <arXiv:1711.04702>.

Version: 1.6.1
Imports: data.table, igraph, magrittr, plyr, parallel, som, visNetwork, reshape2, shiny
Suggests: knitr, rmarkdown
Published: 2018-06-28
Author: Deisy Morselli Gysi, Andre Voigt, Tiago Miranda Fragoso, Eivind Almaas and Katja Nowick.
Maintainer: Deisy Morselli Gysi <deisy at bioinf.uni-leipzig.de>
License: GPL-2
NeedsCompilation: no
Citation: wTO citation info
CRAN checks: wTO results

Downloads:

Reference manual: wTO.pdf
Vignettes: Vignette Title
Package source: wTO_1.6.1.tar.gz
Windows binaries: r-devel: wTO_1.6.1.zip, r-release: wTO_1.6.1.zip, r-oldrel: wTO_1.6.1.zip
OS X binaries: r-release: wTO_1.6.1.tgz, r-oldrel: wTO_1.6.1.tgz
Old sources: wTO archive

Reverse dependencies:

Reverse suggests: CoDiNA

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