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.
| Version: | 1.2.2 |
| Imports: | data.table, igraph, magrittr, plyr, parallel, som, visNetwork, reshape2 |
| Published: | 2017-07-16 |
| 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 |
| CRAN checks: | wTO results |
| Reference manual: | wTO.pdf |
| Package source: | wTO_1.2.2.tar.gz |
| Windows binaries: | r-devel: wTO_1.2.2.zip, r-release: wTO_1.2.2.zip, r-oldrel: wTO_1.2.2.zip |
| OS X El Capitan binaries: | r-release: wTO_1.2.2.tgz |
| OS X Mavericks binaries: | r-oldrel: wTO_1.2.2.tgz |
| Old sources: | wTO archive |
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