Package: wTO
Type: Package
Title: Computing Weighted Topological Overlaps (wTO) & Consensus wTO
        Network
Version: 2.1
Author: Deisy Morselli Gysi, Andre Voigt, Tiago Miranda Fragoso, Eivind Almaas and Katja Nowick.
Maintainer: Deisy Morselli Gysi <deisy.ccnr@gmail.com>
Description: 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>.
License: GPL-2
LazyData: TRUE
Imports: data.table, igraph, magrittr, plyr, parallel, som, visNetwork,
        reshape2, Rfast, HiClimR, methods
Suggests: knitr, rmarkdown
RoxygenNote: 7.3.1
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-07-04 19:54:14 UTC; deisygysi
Repository: CRAN
Date/Publication: 2024-07-04 22:40:01 UTC
Built: R 4.6.0; ; 2026-04-29 05:35:18 UTC; unix
