Package: RTNduals 1.29.0

Mauro Castro

RTNduals: Analysis of co-regulation and inference of 'dual regulons'

RTNduals is a tool that searches for possible co-regulatory loops between regulon pairs generated by the RTN package. It compares the shared targets in order to infer 'dual regulons', a new concept that tests whether regulators can co-operate or compete in influencing targets.

Authors:Vinicius S. Chagas, Clarice S. Groeneveld, Gordon Robertson, Kerstin B. Meyer, Mauro A. A. Castro

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RTNduals.pdf |RTNduals.html✨
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NEWS

# Install 'RTNduals' in R:

install.packages('RTNduals', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:RTNduals-1.29.0(bioc 3.20)RTNduals-1.28.0(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bioconductor-package

6 exports 1.00 score 135 dependencies 1 dependents

Last updated 2 months agofrom:4f1b41da55

Exports:mbrAssociation mbrGet mbrPlotDuals mbrPlotInteraction mbrPriorEvidenceTable tni2mbrPreprocess

Dependencies:abind askpass backports base64enc Biobase BiocGenerics boot brio broom bslib cachem callr car carData class cli colorspace cpp11 crayon crosstalk curl data.table DelayedArray desc diffobj digest dplyr e1071 evaluate fansi farver fastmap fontawesome fs generics GenomeInfoDb GenomeInfoDbData GenomicRanges ggplot2 glue gtable highr htmltools htmlwidgets httr igraph infotheo IRanges isoband jquerylib jsonlite kernlab KernSmooth knitr labeling later lattice lazyeval lifecycle limma lme4 magrittr MASS Matrix MatrixGenerics MatrixModels matrixStats memoise mgcv mime minet minqa mixtools munsell nlme nloptr nnet numDeriv openssl pbkrtest pheatmap pillar pkgbuild pkgconfig pkgload plotly praise processx promises proxy ps purrr pwr quantreg R6 rappdirs RColorBrewer Rcpp RcppEigen RedeR rematch2 rlang rmarkdown rprojroot RTN S4Arrays S4Vectors sass scales segmented snow SparseArray SparseM statmod stringi stringr SummarizedExperiment survival sys testthat tibble tidyr tidyselect tinytex UCSC.utils utf8 vctrs viper viridisLite waldo withr xfun XVector yaml zlibbioc

RTNduals: analysis of co-regulation and inference of dual regulons.

Vinicius S. Chagas, Clarice S. Groeneveld, Kerstin B. Meyer, A. Gordon Robertson, Mauro A. A. Castro.

Rendered fromRTNduals.Rmdusingknitr::rmarkdownon Jun 17 2024.

Last update: 2019-11-13
Started: 2017-01-19

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

Package: RTNduals 1.29.0

RTNduals: Analysis of co-regulation and inference of 'dual regulons'

RTNduals: analysis of co-regulation and inference of dual regulons.

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