Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks 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 <doi:10.1186/s12859-018-2351-7>.
Version: 2.1 Imports: data.table, igraph, magrittr, plyr, parallel, som, visNetwork, reshape2, Rfast, HiClimR, methods Suggests: knitr, rmarkdown Published: 2024-07-04 DOI: 10.32614/CRAN.package.wTO Author: Deisy Morselli Gysi, Andre Voigt, Tiago Miranda Fragoso, Eivind Almaas and Katja Nowick. Maintainer: Deisy Morselli Gysi <deisy.ccnr at gmail.com> License: GPL-2 NeedsCompilation: no Citation: wTO citation info Materials: README CRAN checks: wTO results Documentation: Downloads: Reverse dependencies: Linking:Please use the canonical form https://CRAN.R-project.org/package=wTO to link to this page.
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