Package: IWTomics 1.29.0

Marzia A Cremona

IWTomics: Interval-Wise Testing for Omics Data

Implementation of the Interval-Wise Testing (IWT) for omics data. This inferential procedure tests for differences in "Omics" data between two groups of genomic regions (or between a group of genomic regions and a reference center of symmetry), and does not require fixing location and scale at the outset.

Authors:Marzia A Cremona, Alessia Pini, Francesca Chiaromonte, Simone Vantini

IWTomics_1.29.0.tar.gz
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IWTomics.pdf |IWTomics.html✨
IWTomics/json (API)
NEWS

# Install 'IWTomics' in R:

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

Datasets:

ETn_example - ETn Recombination hotspots data
features_example - Example of features
regionsFeatures_center - Example of '"IWTomicsData"' object with center alignment
regionsFeatures_scale - Example of '"IWTomicsData"' object with scale alignment
regions_example - Example of regions

On BioConductor:IWTomics-1.29.0(bioc 3.20)IWTomics-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

26 exports 0.91 score 64 dependencies 1 mentions

Last updated 2 months agofrom:cb8d9ec3b0

Exports:adjusted_pval alignment features idFeatures idFeaturesTest idRegions idRegionsTest IWTomicsData IWTomicsTest lengthFeatures lengthRegions merge metadata nameFeatures nameRegions nFeatures nRegions nTests plot.IWTomicsData plotSummary plotTest regions resolution show smooth testInput

Dependencies:ash askpass BiocGenerics bitops cli cluster colorspace curl deSolve fansi farver fda fds FNN GenomeInfoDb GenomeInfoDbData GenomicRanges ggplot2 glue gtable hdrcde httr IRanges isoband jsonlite kernlab KernSmooth ks labeling lattice lifecycle locfit magrittr MASS Matrix mclust mgcv mime multicool munsell mvtnorm nlme openssl pcaPP pillar pkgconfig pracma R6 rainbow RColorBrewer Rcpp RCurl rlang S4Vectors scales sys tibble UCSC.utils utf8 vctrs viridisLite withr XVector zlibbioc

Introduction to IWTomics

Rendered fromIWTomics.Rnwusingknitr::knitron Jun 30 2024.

Last update: 2018-09-07
Started: 2016-11-28

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Interval-Wise Testing for Omics Data	IWTomics-package IWTomics
ETn Recombination hotspots data	ETn_example
Example of features	features_example
Class '"IWTomicsData"'	adjusted_pval alignment c,IWTomicsData-method cbind,IWTomicsData-method features idFeatures idFeaturesTest idRegions idRegionsTest IWTomicsData IWTomicsData,character,character-method IWTomicsData,character,data.frame-method IWTomicsData,character,matrix-method IWTomicsData,GRangesList,list-method IWTomicsData-class lengthFeatures lengthRegions merge,IWTomicsData,IWTomicsData-method metadata nameFeatures nameRegions nFeatures nRegions nTests rbind,IWTomicsData-method regions resolution show,IWTomicsData-method testInput [,IWTomicsData,ANY,ANY,ANY-method
Interval-Wise Testing	IWTomicsTest
Plot '"IWTomicsData"' object	plot plot,IWTomicsData-method
Summary plots of Interval-Wise Testing result	plotSummary
Detailed plots of Interval-Wise Testing result	plotTest
Example of regions	regions_example
Example of '"IWTomicsData"' object with center alignment	regionsFeatures_center
Example of '"IWTomicsData"' object with scale alignment	regionsFeatures_scale
Smooth curves of a '"IWTomicsData"' object	smooth smooth,IWTomicsData-method