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: 2026-07-01 15:59:01 UTC; root
Repository: https://cran.r-universe.dev
Date/Publication: 2024-07-05 02:43:58 UTC
RemoteUrl: https://github.com/cran/wTO
RemoteRef: HEAD
RemoteSha: 0c431a504419c4d47bac6c7aa4dc89958a716c34