Package: regionalpcs 1.11.0

Tiffany Eulalio

regionalpcs: Summarizing Regional Methylation with Regional Principal Components Analysis

Functions to summarize DNA methylation data using regional principal components. Regional principal components are computed using principal components analysis within genomic regions to summarize the variability in methylation levels across CpGs. The number of principal components is chosen using either the Marcenko-Pasteur or Gavish-Donoho method to identify relevant signal in the data.

Authors:Tiffany Eulalio [aut, cre]

regionalpcs_1.11.0.tar.gz
regionalpcs_1.11.0.zip(r-4.7)regionalpcs_1.11.0.zip(r-4.6)regionalpcs_1.11.0.zip(r-4.5)
regionalpcs_1.11.0.tgz(r-4.6-any)regionalpcs_1.11.0.tgz(r-4.5-any)
regionalpcs_1.11.0.tar.gz(r-4.7-any)regionalpcs_1.11.0.tar.gz(r-4.6-any)
regionalpcs_1.11.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
regionalpcs/json (API)
NEWS

# Install 'regionalpcs' in R:
install.packages('regionalpcs', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/tyeulalio/regionalpcs/issues

On BioConductor:regionalpcs-1.11.0(bioc 3.24)regionalpcs-1.10.0(bioc 3.23)

dnamethylationdifferentialmethylationstatisticalmethodsoftwaremethylationarray

4.60 score 4 stars 7 scripts 280 downloads 6 exports 65 dependencies

Last updated from:15c6b22aeb. Checks:1 NOTE, 9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE343
linux-devel-x86_64OK379
source / vignettesOK365
linux-release-x86_64OK410
macos-release-arm64OK203
macos-oldrel-arm64OK165
windows-develOK1667
windows-releaseOK1493
windows-oldrelOK1545
wasm-releaseOK314

Exports:combine_resultscompute_dimensioncompute_regional_pcscreate_region_mapget_sig_pcssummarize_region

Dependencies:abindassortheadbeachmatBHBiocGenericsBiocParallelBiocSingularclicodetoolscowplotcpp11DelayedArrayDelayedMatrixStatsdplyrdqrngfarverformatRfutile.loggerfutile.optionsgenericsGenomicRangesggplot2ggrepelgluegtableIRangesirlbaisobandlabelinglambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsPCAtoolspillarpkgconfigplyrR6RColorBrewerRcppreshape2rlangrsvdS4ArraysS4VectorsS7ScaledMatrixscalesSeqinfositmosnowSparseArraysparseMatrixStatsstringistringrtibbletidyselectutf8vctrsviridisLitewithrXVector

regionalpcs

Tiffany Eulalio

Rendered fromregionalpcs.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2023-10-12
Started: 2023-04-22