Package: IWTomics 1.37.0
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:
IWTomics_1.37.0.tar.gz
IWTomics_1.37.0.zip(r-4.7)IWTomics_1.37.0.zip(r-4.6)IWTomics_1.37.0.zip(r-4.5)
IWTomics_1.37.0.tgz(r-4.6-any)IWTomics_1.37.0.tgz(r-4.5-any)
IWTomics_1.37.0.tar.gz(r-4.7-any)IWTomics_1.37.0.tar.gz(r-4.6-any)
IWTomics_1.37.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
IWTomics/json (API)
NEWS
| # Install 'IWTomics' in R: |
| install.packages('IWTomics', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- ETn_example - ETn Recombination hotspots data
- features_example - Example of features
- regions_example - Example of regions
- regionsFeatures_center - Example of '"IWTomicsData"' object with center alignment
- regionsFeatures_scale - Example of '"IWTomicsData"' object with scale alignment
On BioConductor:IWTomics-1.37.0(bioc 3.24)IWTomics-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.
statisticalmethodmultiplecomparisondifferentialexpressiondifferentialmethylationdifferentialpeakcallinggenomeannotationdataimport
Last updated from:a1b513d2ff. Checks:1 ERROR, 7 WARNING, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 164 | ||
| linux-devel-x86_64 | WARNING | 329 | ||
| source / vignettes | OK | 303 | ||
| linux-release-x86_64 | WARNING | 256 | ||
| macos-release-arm64 | WARNING | 535 | ||
| macos-oldrel-arm64 | WARNING | 145 | ||
| windows-devel | WARNING | 223 | ||
| windows-release | WARNING | 216 | ||
| windows-oldrel | WARNING | 195 | ||
| wasm-release | OK | 112 |
Exports:adjusted_pvalalignmentfeaturesidFeaturesidFeaturesTestidRegionsidRegionsTestIWTomicsDataIWTomicsTestlengthFeatureslengthRegionsmergemetadatanameFeaturesnameRegionsnFeaturesnRegionsnTestsplot.IWTomicsDataplotSummaryplotTestregionsresolutionshowsmoothtestInput
Dependencies:ashBiocGenericsbitopscliclustercolorspacecpp11deSolvefarverfdafdsFNNgenericsGenomicRangesggplot2gluegtablehdrcdeIRangesisobandkernlabKernSmoothkslabelinglatticelifecyclelocfitMASSMatrixmclustmgcvmulticoolmvtnormnlmepcaPPpracmaR6rainbowRColorBrewerRcppRCurlrlangS4VectorsS7scalesSeqinfovctrsviridisLitewithr
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 |
