Overview | Quick Start | Load datasets | Preprocessing | Run permutation analysis | Run bootstrap analysis | Construct an MBR-class object and apply DPI algorithm | Run association analysis between regulons | Session information | References
Package: RTNduals 1.37.0
Mauro Castro
RTNduals: Analysis of co-regulation and inference of 'dual regulons'
RTNduals identifies co-regulatory loops between pairs of regulons inferred by the RTN package by evaluating their shared target genes. It infers dual regulons and tests whether regulator pairs exhibit cooperative or competitive influences on common targets.
Authors:
RTNduals_1.37.0.tar.gz
RTNduals_1.37.0.zip(r-4.7)RTNduals_1.37.0.zip(r-4.6)RTNduals_1.37.0.zip(r-4.5)
RTNduals_1.37.0.tgz(r-4.6-any)RTNduals_1.37.0.tgz(r-4.5-any)
RTNduals_1.37.0.tar.gz(r-4.7-any)RTNduals_1.37.0.tar.gz(r-4.6-any)
RTNduals_1.37.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
RTNduals/json (API)
| # Install 'RTNduals' in R: |
| install.packages('RTNduals', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:RTNduals-1.37.0(bioc 3.24)RTNduals-1.36.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
generegulationgeneexpressionnetworkenrichmentnetworkinferencegraphandnetwork
Last updated from:06512eb54b. Checks:1 ERROR, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 199 | ||
| linux-devel-x86_64 | OK | 470 | ||
| source / vignettes | OK | 293 | ||
| linux-release-x86_64 | OK | 443 | ||
| macos-release-arm64 | OK | 356 | ||
| macos-oldrel-arm64 | OK | 366 | ||
| windows-devel | OK | 396 | ||
| windows-release | OK | 403 | ||
| windows-oldrel | OK | 384 | ||
| wasm-release | OK | 183 |
Exports:mbrAssociationmbrGetmbrPlotDualsmbrPlotInteractionmbrPriorEvidenceTabletni2mbrPreprocess
Dependencies:abindaskpassbackportsbase64encBiobaseBiocGenericsbootbroombslibcachemcarcarDataclassclicolorspacecowplotcpp11crosstalkcurldata.tableDelayedArrayDerivdigestdoBydplyre1071evaluatefarverfastmapfontawesomeforecastFormulafracdifffsgenericsGenomicRangesggplot2gluegtablehighrhtmltoolshtmlwidgetshttrigraphinfotheoIRangesisobandjquerylibjsonlitekernlabKernSmoothknitrlabelinglaterlatticelazyevallifecyclelimmalme4lmtestmagrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmemoisemgcvmimeminetminqamixtoolsmodelrnlmenloptrnnetnumDerivopensslotelpbkrtestpheatmappillarpkgconfigplotlypromisesproxypurrrpwrquantregR6rappdirsrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackRedeRreformulasrlangrmarkdownRTNS4ArraysS4VectorsS7sassscalessegmentedSeqinfosnowSparseArraySparseMstatmodstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselecttimeDatetinytexurcautf8vctrsviperviridisLitewithrxfunXVectoryamlzoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| RTNduals: An R/Bioconductor package for analysis of co-regulation and inference of 'dual regulons'. | RTNduals-package RTNduals |
| MBR objects | MBR MBR-class |
| Motifs analysis and inference of 'dual regulons'. | mbrAssociation mbrAssociation,MBR-method |
| Get information from individual slots in MBR object. | mbrGet mbrGet,MBR-method |
| Plot shared targets between regulons. | mbrPlotDuals |
| Plot interaction effects between two continuous variables. | mbrPlotInteraction |
| Entry point for external evidences. | mbrPriorEvidenceTable mbrPriorEvidenceTable,MBR-method |
| A preprocessing function for objects of class MBR. | tni2mbrPreprocess tni2mbrPreprocess,TNI-method |
