Package: wTO 2.1
Deisy Morselli Gysi
wTO: Computing Weighted Topological Overlaps (wTO) & Consensus wTO Network
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>.
Authors:
wTO_2.1.tar.gz
wTO_2.1.tar.gz(r-4.7-any)wTO_2.1.tar.gz(r-4.6-any)
wTO_2.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
wTO/json (API)
| # Install 'wTO' in R: |
| install.packages('wTO', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- ExampleGRF - ExampleGRF
- metagenomics_abundance - Metagenomics_abundance
- Microarray_Expression1 - Microarray_Expression1
- Microarray_Expression2 - Microarray_Expression2
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:0c431a5044. Checks:4 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 134 | ||
| source / vignettes | OK | 239 | ||
| linux-release-x86_64 | OK | 139 | ||
| wasm-release | OK | 164 |
Exports:CorrelationOverlapNetViswTOwTO.CompletewTO.ConsensuswTO.exportwTO.fastwTO.in.linewTO.rep_measure
Dependencies:base64encbslibcachemclicpp11data.tabledigestevaluatefastmapfontawesomefsglueHiClimRhighrhtmltoolshtmlwidgetsigraphjquerylibjsonliteknitrlatticelifecyclemagrittrMatrixmemoisemimencdf4pkgconfigplyrR6rappdirsRcppRcppArmadilloRcppParallelreshape2RfastrlangrmarkdownsasssomstringistringrtinytexvctrsvisNetworkxfunyamlzigg
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| CorrelationOverlap | CorrelationOverlap |
| ExampleGRF | ExampleGRF |
| metagenomics_abundance | metagenomics_abundance |
| Microarray_Expression1 | Microarray_Expression1 |
| Microarray_Expression2 | Microarray_Expression2 |
| NetVis | NetVis |
| wTO | wTO |
| wTO.Complete | wTO.Complete |
| wTO.Consensus | wTO.Consensus |
| wTO.export | wTO.export |
| wTO.fast | wTO.fast |
| wTO.in.line | wTO.in.line |
| wTO.rep_measure | wTO.rep_measure |