Package: Harman 1.41.0

Jason Ross

Harman: The removal of batch effects from datasets using a PCA and constrained optimisation based technique

Harman is a PCA and constrained optimisation based technique that maximises the removal of batch effects from datasets, with the constraint that the probability of overcorrection (i.e. removing genuine biological signal along with batch noise) is kept to a fraction which is set by the end-user.

Authors:Yalchin Oytam [aut], Josh Bowden [aut], Jason Ross [aut, cre]

Harman_1.41.0.tar.gz
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manual.pdf |manual.html✨
card.svg |card.png
Harman/json (API)
NEWS

# Install 'Harman' in R:
install.packages('Harman', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • c++– GNU Standard C++ Library v3

On BioConductor:Harman-1.41.0(bioc 3.24)Harman-1.40.0(bioc 3.23)

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

batcheffectmicroarraymultiplecomparisonprincipalcomponentnormalizationpreprocessingdnamethylationtranscriptionsoftwarestatisticalmethodcpp

6.53 score 2 packages 38 scripts 512 downloads 10 mentions 9 exports 5 dependencies

Last updated from:86d8a24be2. Checks:1 WARNING, 6 OK, 7 NOTE. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING415
linux-devel-arm64OK397
linux-devel-x86_64OK457
source / vignettesOK545
linux-release-arm64OK418
linux-release-x86_64OK445
macos-release-arm64NOTE223
macos-release-x86_64NOTE469
macos-oldrel-arm64NOTE278
macos-oldrel-x86_64NOTE605
windows-develNOTE304
windows-releaseNOTE294
windows-oldrelNOTE323
wasm-releaseOK389

Exports:arrowPlotclusterStatsdiscoverClusteredMethylationharmankClusterMethylationpcaPlotprcompPlotreconstructDatashiftBetas

Dependencies:Ckmeans.1d.dpmatrixStatsrbibutilsRcppRdpack

An Introduction to Harman

Jason Ross and Yalchin Oytam

Rendered fromIntroductionToHarman.Rmdusingknitr::rmarkdownon May 14 2026.

Last update: 2022-02-16
Started: 2016-04-14