Package: ADaCGH2 2.52.0

Ramon Diaz-Uriarte

ADaCGH2: Analysis of Big Data from aCGH Experiments using Parallel Computing and ff Objects

Analysis and plotting of array CGH data. Allows usage of Circular Binary Segementation, wavelet-based smoothing (both as in Liu et al., and HaarSeg as in Ben-Yaacov and Eldar), HMM, GLAD, CGHseg. Most computations are parallelized (either via forking or with clusters, including MPI and sockets clusters) and use ff for storing data.

Authors:Ramon Diaz-Uriarte [aut, cre], Oscar M. Rueda [aut], Li Hsu [ctb], Douglas Grove [ctb], Barry Rowlingson [ctb], Erez Ben-Yaacov [ctb], Edwin de Jonge [ctb], Jan Wijffels [ctb], Jan van der Laan [ctb]

ADaCGH2_2.52.0.tar.gz
ADaCGH2_2.52.0.zip(r-4.7)ADaCGH2_2.52.0.zip(r-4.6)ADaCGH2_2.52.0.zip(r-4.5)
ADaCGH2_2.52.0.tgz(r-4.6-x86_64)ADaCGH2_2.52.0.tgz(r-4.6-arm64)ADaCGH2_2.52.0.tgz(r-4.5-x86_64)ADaCGH2_2.52.0.tgz(r-4.5-arm64)
ADaCGH2_2.52.0.tar.gz(r-4.7-arm64)ADaCGH2_2.52.0.tar.gz(r-4.7-x86_64)ADaCGH2_2.52.0.tar.gz(r-4.6-arm64)ADaCGH2_2.52.0.tar.gz(r-4.6-x86_64)
ADaCGH2_2.52.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
ADaCGH2/json (API)
NEWS

# Install 'ADaCGH2' in R:
install.packages('ADaCGH2', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/rdiaz02/adacgh2/issues

Datasets:

On BioConductor:ADaCGH2-2.53.0(bioc 3.24)ADaCGH2-2.52.0(bioc 3.23)

microarraycopynumbervariationacgh

3.60 score 7 scripts 10 exports 74 dependencies

Last updated from:fc70ad950c (on RELEASE_3_23). Checks:1 WARNING, 13 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING183
linux-devel-arm64OK257
linux-devel-x86_64OK359
source / vignettesOK296
linux-release-arm64OK264
linux-release-x86_64OK353
macos-release-arm64OK171
macos-release-x86_64OK514
macos-oldrel-arm64OK168
macos-oldrel-x86_64OK343
windows-develOK305
windows-releaseOK229
windows-oldrelOK306
wasm-releaseOK122

Exports:cutFileinputToADaCGHoutputToCGHregionspChromPlotpSegmentCGHsegpSegmentDNAcopypSegmentGLADpSegmentHaarSegpSegmentHMMpSegmentWavelets

Dependencies:aCGHaffyaffyioannotateAnnotationDbiaskpassBiobaseBiocGenericsBiocManagerBiostringsbitbit64blobcachemcliclustercpp11crayoncurlDBIDNAcopyfarverfastmapffgenefiltergenericsggplot2gluegtablehttrIRangesisobandjsonliteKEGGRESTlabelinglatticelifecyclelimmaMASSMatrixMatrixGenericsmatrixStatsmemoisemimemultitapermulttestopensslpixmappkgconfigpngpreprocessCoreR6RColorBrewerrlangRSQLiteS4VectorsS7sandwichscalesSeqinfostatmodstrucchangesurvivalsystilingArrayvctrsviridisLitevsnwaveslimwithrXMLxtableXVectorzoo

ADaCGH2 Overview

Rendered fromADaCGH2.Rnwusingutils::Sweaveon Jun 21 2026.

Last update: 2026-04-16
Started: 2013-05-30