Package: CellMixS 1.29.0

Almut Lütge

CellMixS: Evaluate Cellspecific Mixing

CellMixS provides metrics and functions to evaluate batch effects, data integration and batch effect correction in single cell trancriptome data with single cell resolution. Results can be visualized and summarised on different levels, e.g. on cell, celltype or dataset level.

Authors:Almut Lütge [aut, cre]

CellMixS_1.29.0.tar.gz
CellMixS_1.29.0.zip(r-4.7)CellMixS_1.29.0.zip(r-4.6)CellMixS_1.29.0.zip(r-4.5)
CellMixS_1.29.0.tgz(r-4.6-any)CellMixS_1.29.0.tgz(r-4.5-any)
CellMixS_1.29.0.tar.gz(r-4.7-any)CellMixS_1.29.0.tar.gz(r-4.6-any)
CellMixS_1.29.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
CellMixS/json (API)
NEWS

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

Bug tracker:https://github.com/almutlue/cellmixs/issues

On BioConductor:CellMixS-1.29.0(bioc 3.24)CellMixS-1.28.0(bioc 3.23)

singlecelltranscriptomicsgeneexpressionbatcheffect

6.55 score 7 stars 67 scripts 494 downloads 1 mentions 14 exports 93 dependencies

Last updated from:6646f69b26. Checks:8 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE200
linux-devel-x86_64NOTE352
source / vignettesOK404
linux-release-x86_64NOTE392
macos-release-arm64NOTE201
macos-oldrel-arm64NOTE172
windows-develNOTE294
windows-releaseNOTE264
windows-oldrelNOTE273
wasm-releaseOK157

Exports:cmsentropyevalIntegrationisildfDiffldfScelocStructuremixMetricvisClustervisGroupvisHistvisIntegrationvisMetricvisOverview

Dependencies:abindassortheadbase64encbeachmatbeeswarmBHBiobaseBiocGenericsBiocNeighborsBiocParallelBiocSingularCairoclicodetoolscowplotcpp11DelayedArraydplyrdqrngfarverFNNformatRfutile.loggerfutile.optionsgenericsGenomicRangesggbeeswarmggplot2ggrastrggrepelggridgesgluegridExtragtableIRangesirlbaisobandjsonlitekSampleslabelinglambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatspheatmappillarpkgconfigpngpurrrR6raggRColorBrewerRcppRcppAnnoyRcppEigenRcppMLRcppProgressrlangRSpectrarsvdRtsneS4ArraysS4VectorsS7ScaledMatrixscalesscaterscuttleSeqinfoSingleCellExperimentsitmosnowSparseArraystringistringrSummarizedExperimentSuppDistssystemfontstextshapingtibbletidyrtidyselectutf8uwotvctrsviporviridisviridisLitewithrXVector

Explore data integration and batch effects

Almut Luetge, Mark D Robinson

Rendered fromCellMixS.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2019-10-23
Started: 2019-03-29

Readme and manuals

Help Manual

Help pageTopics
Toolbox to explore batch effects and data integration in scRNA data.CellMixS-package
.cmsCell.cmsCell
.defineSubspace.defineSubspace
.filterKnn.filterKnn
.filterLocMin.filterLocMin
.ldfKnn.ldfKnn
.smoothCms.smoothCms
cmscms
entropyentropy
evalIntegrationevalIntegration
isiisi
ldfDiffldfDiff
ldfSceldfSce
locStructurelocStructure
mixMetricmixMetric
visClustervisCluster
visGroupvisGroup
visHistvisHist
visIntegrationvisIntegration
visMetricvisMetric
visOverviewvisOverview