Package: arrayMvout 1.67.0

Image

V. Carey

arrayMvout: multivariate outlier detection for expression array QA

This package supports the application of diverse quality metrics to AffyBatch instances, summarizing these metrics via PCA, and then performing parametric outlier detection on the PCs to identify aberrant arrays with a fixed Type I error rate

Authors:Z. Gao, A. Asare, R. Wang, V. Carey

arrayMvout_1.67.0.tar.gz
arrayMvout_1.67.0.zip(r-4.6)arrayMvout_1.67.0.zip(r-4.5)arrayMvout_1.67.0.zip(r-4.4)
arrayMvout_1.67.0.tgz(r-4.5-any)
arrayMvout_1.67.0.tar.gz(r-4.6-any)arrayMvout_1.67.0.tar.gz(r-4.5-any)
arrayMvout_1.67.0.tgz(r-4.5-emscripten)
arrayMvout.pdf |arrayMvout.html✨
arrayMvout/json (API)

# Install 'arrayMvout' in R:
install.packages('arrayMvout', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • afxsubDEG - Multivariate outlier detection based on PCA of QA statistics
  • fig3map - Multivariate outlier detection based on PCA of QA statistics
  • ilmQA - Multivariate outlier detection based on PCA of QA statistics
  • itnQA - Multivariate outlier detection based on PCA of QA statistics
  • maqcQA - Multivariate outlier detection based on PCA of QA statistics
  • s12cDEG - Multivariate outlier detection based on PCA of QA statistics
  • spikQA - Multivariate outlier detection based on PCA of QA statistics

On BioConductor:arrayMvout-1.69.0(bioc 3.23)arrayMvout-1.68.0(bioc 3.22)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

infrastructuremicroarrayqualitycontrol

3.52 score 11 scripts 466 downloads 3 mentions 3 exports 160 dependencies

Last updated from:6ca6ebbb54. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.

TargetResultTotal timeArtifact
bioc-checksERROR369
linux-devel-x86_64NOTE596
source / vignettesOK517
linux-release-x86_64NOTE558
macos-release-arm64NOTE344
macos-oldrel-arm64NOTE357
windows-develNOTE521
windows-releaseNOTE554
windows-oldrelNOTE468
wasm-releaseOK342

Exports:ArrayOutliersplotshow

Dependencies:abindaffyaffyContamaffydataaffyioannotateAnnotationDbiaskpassbase64beanplotBHBiobaseBiocGenericsBiocIOBiocManagerBiocParallelBiostringsbitbit64bitopsblobbumphuntercachemcigarilloclicliprclustercodetoolscpp11crayoncurldata.tableDBIDelayedArrayDelayedMatrixStatsdigestdoRNGdplyrfarverfastmapFDb.InfiniumMethylation.hg19foreachformatRfutile.loggerfutile.optionsgenefiltergenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesGEOqueryggplot2gluegtableh5mreadHDF5Arrayhmshttrhttr2illuminaioIRangesisobanditeratorsjsonliteKEGGRESTKernSmoothlabelinglambda.rlatticelifecyclelimmalocfitlumimagrittrMASSMatrixMatrixGenericsmatrixStatsmclustmdqcmemoisemethylumimgcvmimeminfimulttestnleqslvnlmenor1mixopensslorg.Hs.eg.dbparodypillarpkgconfigplogrplyrpngpreprocessCoreprettyunitsprogresspurrrquadprogR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRCurlreadrrentrezreshapereshape2restfulrrhdf5rhdf5filtersRhdf5libRhtslibrjsonrlangrngtoolsRsamtoolsRSQLitertracklayerrvestS4ArraysS4VectorsS7scalesscrimeselectrSeqinfosiggenessnowSparseArraysparseMatrixStatsstatmodstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselectTxDb.Hsapiens.UCSC.hg19.knownGenetzdbUCSC.utilsutf8vctrsviridisLitevroomwithrXMLxml2xtableXVectoryaml

arrayMvout -- multivariate outlier algorithm for expression arrays

Rendered fromarrayMvout.Rnwusingutils::Sweaveon Nov 23 2025.

Last update: 2020-12-08
Started: 2013-11-01

Readme and manuals

Help Manual

Help pageTopics
Multivariate outlier detection based on PCA of QA statisticsafxsubDEG afxsubQC ArrayOutliers fig3map ILM1 ilmQA itnQA maqcQA s12c s12cDEG s12cQC spikQA
ArrayOutliers - wrapper for platform-specific multivariate outlier detection for expression arraysArrayOutliers,AffyBatch,numeric,ANY-method ArrayOutliers,ANY,missing,missing-method ArrayOutliers,data.frame,numeric,ANY-method ArrayOutliers,LumiBatch,numeric,ANY-method ArrayOutliers-methods
Class "arrOutStruct" container for ArrayOutliers outputarrOutStruct-class plot,arrOutStruct,ANY-method show,arrOutStruct-method
Image

  • Image