Package: qsmooth 1.23.0

Stephanie C. Hicks

qsmooth: Smooth quantile normalization

Smooth quantile normalization is a generalization of quantile normalization, which is average of the two types of assumptions about the data generation process: quantile normalization and quantile normalization between groups.

Authors:Stephanie C. Hicks [aut, cre], Kwame Okrah [aut], Koen Van den Berge [ctb], Hector Corrada Bravo [aut], Rafael Irizarry [aut]

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qsmooth.pdf |qsmooth.html✨
qsmooth/json (API)
NEWS

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

Peer review:

On BioConductor:qsmooth-1.23.0(bioc 3.21)qsmooth-1.22.0(bioc 3.20)

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

normalizationpreprocessingmultiplecomparisonmicroarraysequencingrnaseqbatcheffect

5.88 score 1 packages 84 scripts 354 downloads 3 mentions 6 exports 117 dependencies

Last updated 3 months agofrom:6a7968bd4b. Checks:1 OK, 6 WARNING. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKDec 30 2024
R-4.5-winWARNINGDec 31 2024
R-4.5-linuxWARNINGDec 30 2024
R-4.4-winWARNINGDec 31 2024
R-4.4-macWARNINGDec 30 2024
R-4.3-winWARNINGNov 30 2024
R-4.3-macWARNINGDec 30 2024

Exports:qsmoothqsmoothDataqsmoothGCqsmoothPlotWeightsqsmoothWeightsqstats

Dependencies:abindannotateAnnotationDbiaskpassbackportsbase64encBHBiobaseBiocGenericsBiocParallelBiostringsbitbit64blobbslibcachemcheckmatecliclustercodetoolscolorspacecpp11crayoncurldata.tableDBIDelayedArraydigestedgeRevaluatefansifarverfastmapfontawesomeforeignformatRFormulafsfutile.loggerfutile.optionsgenefiltergenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2gluegridExtragtablehighrHmischtmlTablehtmltoolshtmlwidgetshttrIRangesisobandjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmennetopensslpillarpkgconfigplogrpngR6rappdirsRColorBrewerrlangrmarkdownrpartRSQLiterstudioapiS4ArraysS4VectorssassscalessnowSparseArraystatmodstringistringrSummarizedExperimentsurvivalsvasystibbletinytexUCSC.utilsutf8vctrsviridisviridisLitewithrxfunXMLxtableXVectoryaml

The qsmooth user's guide

Stephanie C. Hicks, Kwame Okrah, Joseph Paulson, John Quackenbush, Rafael A. Irizarry, Hector Corrada-Bravo

Rendered fromqsmooth.Rmdusingknitr::rmarkdownon Dec 30 2024.

Last update: 2021-06-25
Started: 2019-03-29

Readme and manuals

Help Manual

Help pageTopics
qsmoothqsmooth
the qsmooth classqsmooth-class
Generic function that returns the qsmooth normalized dataqsmoothData qsmoothData,qsmooth-method
qsmoothGCqsmoothGC
Plot weights from 'qsmooth' function.qsmoothPlotWeights
Generic function that returns the qsmooth weightsqsmoothWeights qsmoothWeights,qsmooth-method
qstatsqstats