Package: IWTomics 1.31.0
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_1.31.0.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')) |
- 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.
statisticalmethodmultiplecomparisondifferentialexpressiondifferentialmethylationdifferentialpeakcallinggenomeannotationdataimport
Last updated 26 days agofrom:87c60ab342. Checks:OK: 1 WARNING: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 30 2024 |
| R-4.5-win | WARNING | Oct 30 2024 |
| R-4.5-linux | WARNING | Oct 30 2024 |
| R-4.4-win | WARNING | Oct 30 2024 |
| R-4.4-mac | WARNING | Oct 31 2024 |
| R-4.3-win | WARNING | Oct 30 2024 |
| R-4.3-mac | WARNING | Oct 31 2024 |
Exports:adjusted_pvalalignmentfeaturesidFeaturesidFeaturesTestidRegionsidRegionsTestIWTomicsDataIWTomicsTestlengthFeatureslengthRegionsmergemetadatanameFeaturesnameRegionsnFeaturesnRegionsnTestsplot.IWTomicsDataplotSummaryplotTestregionsresolutionshowsmoothtestInput
Dependencies:ashaskpassBiocGenericsbitopscliclustercolorspacecurldeSolvefansifarverfdafdsFNNGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2gluegtablehdrcdehttrIRangesisobandjsonlitekernlabKernSmoothkslabelinglatticelifecyclelocfitmagrittrMASSMatrixmclustmgcvmimemulticoolmunsellmvtnormnlmeopensslpcaPPpillarpkgconfigpracmaR6rainbowRColorBrewerRcppRCurlrlangS4VectorsscalessystibbleUCSC.utilsutf8vctrsviridisLitewithrXVectorzlibbioc
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 |
