Joshua David Campbell
| Snapshot Date: 2026-03-03 13:40 -0500 (Tue, 03 Mar 2026) |
| git_url: https://git.bioconductor.org/packages/singleCellTK |
| git_branch: devel |
| git_last_commit: 15d4a13 |
| git_last_commit_date: 2026-01-11 08:42:53 -0500 (Sun, 11 Jan 2026) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-03-04 11:35 -0500 (Wed, 04 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4882 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4574 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 2028/2357 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| singleCellTK 2.21.1 (landing page) Joshua David Campbell
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | TIMEOUT | OK | |||||||||
| See other builds for singleCellTK in R Universe. | ||||||||||||||
|
To the developers/maintainers of the singleCellTK package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/singleCellTK.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: singleCellTK |
| Version: 2.21.1 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:singleCellTK.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings singleCellTK_2.21.1.tar.gz |
| StartedAt: 2026-03-03 22:18:33 -0500 (Tue, 03 Mar 2026) |
| EndedAt: 2026-03-03 22:58:33 -0500 (Tue, 03 Mar 2026) |
| EllapsedTime: 2400.0 seconds |
| RetCode: None |
| Status: TIMEOUT |
| CheckDir: singleCellTK.Rcheck |
| Warnings: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:singleCellTK.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings singleCellTK_2.21.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/singleCellTK.Rcheck’
* using R Under development (unstable) (2026-01-15 r89304)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 16.0.0 (clang-1600.0.26.6)
GNU Fortran (GCC) 14.2.0
* running under: macOS Sonoma 14.8.3
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘singleCellTK/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘singleCellTK’ version ‘2.21.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Imports includes 80 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable. Move as many as possible to Suggests and
use conditionally.
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘singleCellTK’ can be installed ... OK
* checking installed package size ... INFO
installed size is 6.8Mb
sub-directories of 1Mb or more:
R 1.0Mb
extdata 1.5Mb
shiny 2.9Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
dedupRowNames.Rd: SingleCellExperiment-class
detectCellOutlier.Rd: colData
diffAbundanceFET.Rd: colData
downSampleCells.Rd: SingleCellExperiment-class
downSampleDepth.Rd: SingleCellExperiment-class
featureIndex.Rd: SummarizedExperiment-class,
SingleCellExperiment-class
getBiomarker.Rd: SingleCellExperiment-class
getDEGTopTable.Rd: SingleCellExperiment-class
getEnrichRResult.Rd: SingleCellExperiment-class
getFindMarkerTopTable.Rd: SingleCellExperiment-class
getGenesetNamesFromCollection.Rd: SingleCellExperiment-class
getPathwayResultNames.Rd: SingleCellExperiment-class
getSampleSummaryStatsTable.Rd: SingleCellExperiment-class, assay,
colData
getSoupX.Rd: SingleCellExperiment-class
getTSCANResults.Rd: SingleCellExperiment-class
getTopHVG.Rd: SingleCellExperiment-class
importAlevin.Rd: DelayedArray, readMM
importAnnData.Rd: DelayedArray, readMM
importBUStools.Rd: readMM
importCellRanger.Rd: readMM, DelayedArray
importCellRangerV2Sample.Rd: readMM, DelayedArray
importCellRangerV3Sample.Rd: readMM, DelayedArray
importDropEst.Rd: DelayedArray, readMM
importExampleData.Rd: scRNAseq, Matrix, DelayedArray,
ReprocessedFluidigmData, ReprocessedAllenData, NestorowaHSCData
importFromFiles.Rd: readMM, DelayedArray, SingleCellExperiment-class
importGeneSetsFromCollection.Rd: GeneSetCollection-class,
SingleCellExperiment-class, GeneSetCollection, GSEABase, metadata
importGeneSetsFromGMT.Rd: GeneSetCollection-class,
SingleCellExperiment-class, getGmt, GSEABase, metadata
importGeneSetsFromList.Rd: GeneSetCollection-class,
SingleCellExperiment-class, GSEABase, metadata
importGeneSetsFromMSigDB.Rd: SingleCellExperiment-class, msigdbr,
GeneSetCollection-class, GSEABase, metadata
importMitoGeneSet.Rd: SingleCellExperiment-class,
GeneSetCollection-class, GSEABase, metadata
importMultipleSources.Rd: DelayedArray
importOptimus.Rd: readMM, DelayedArray
importSEQC.Rd: readMM, DelayedArray
importSTARsolo.Rd: readMM, DelayedArray
iterateSimulations.Rd: SingleCellExperiment-class
listSampleSummaryStatsTables.Rd: SingleCellExperiment-class, metadata
plotBarcodeRankDropsResults.Rd: SingleCellExperiment-class
plotBarcodeRankScatter.Rd: SingleCellExperiment-class
plotBatchCorrCompare.Rd: SingleCellExperiment-class
plotBatchVariance.Rd: SingleCellExperiment-class
plotBcdsResults.Rd: SingleCellExperiment-class
plotClusterAbundance.Rd: colData
plotCxdsResults.Rd: SingleCellExperiment-class
plotDEGHeatmap.Rd: SingleCellExperiment-class
plotDEGRegression.Rd: SingleCellExperiment-class
plotDEGViolin.Rd: SingleCellExperiment-class
plotDEGVolcano.Rd: SingleCellExperiment-class
plotDecontXResults.Rd: SingleCellExperiment-class
plotDoubletFinderResults.Rd: SingleCellExperiment-class
plotEmptyDropsResults.Rd: SingleCellExperiment-class
plotEmptyDropsScatter.Rd: SingleCellExperiment-class
plotEnrichR.Rd: SingleCellExperiment-class
plotFindMarkerHeatmap.Rd: SingleCellExperiment-class
plotPCA.Rd: SingleCellExperiment-class
plotPathway.Rd: SingleCellExperiment-class
plotRunPerCellQCResults.Rd: SingleCellExperiment-class
plotSCEBarAssayData.Rd: SingleCellExperiment-class
plotSCEBarColData.Rd: SingleCellExperiment-class
plotSCEBatchFeatureMean.Rd: SingleCellExperiment-class
plotSCEDensity.Rd: SingleCellExperiment-class
plotSCEDensityAssayData.Rd: SingleCellExperiment-class
plotSCEDensityColData.Rd: SingleCellExperiment-class
plotSCEDimReduceColData.Rd: SingleCellExperiment-class
plotSCEDimReduceFeatures.Rd: SingleCellExperiment-class
plotSCEHeatmap.Rd: SingleCellExperiment-class
plotSCEScatter.Rd: SingleCellExperiment-class
plotSCEViolin.Rd: SingleCellExperiment-class
plotSCEViolinAssayData.Rd: SingleCellExperiment-class
plotSCEViolinColData.Rd: SingleCellExperiment-class
plotScDblFinderResults.Rd: SingleCellExperiment-class
plotScdsHybridResults.Rd: SingleCellExperiment-class
plotScrubletResults.Rd: SingleCellExperiment-class
plotSoupXResults.Rd: SingleCellExperiment-class
plotTSCANClusterDEG.Rd: SingleCellExperiment-class
plotTSCANClusterPseudo.Rd: SingleCellExperiment-class
plotTSCANDimReduceFeatures.Rd: SingleCellExperiment-class
plotTSCANPseudotimeGenes.Rd: SingleCellExperiment-class
plotTSCANPseudotimeHeatmap.Rd: SingleCellExperiment-class
plotTSCANResults.Rd: SingleCellExperiment-class
plotTSNE.Rd: SingleCellExperiment-class
plotUMAP.Rd: SingleCellExperiment-class
readSingleCellMatrix.Rd: DelayedArray
reportCellQC.Rd: SingleCellExperiment-class
reportClusterAbundance.Rd: colData
reportDiffAbundanceFET.Rd: colData
retrieveSCEIndex.Rd: SingleCellExperiment-class
runBBKNN.Rd: SingleCellExperiment-class
runBarcodeRankDrops.Rd: SingleCellExperiment-class, colData
runBcds.Rd: SingleCellExperiment-class, colData
runCellQC.Rd: colData
runComBatSeq.Rd: SingleCellExperiment-class
runCxds.Rd: SingleCellExperiment-class, colData
runCxdsBcdsHybrid.Rd: colData
runDEAnalysis.Rd: SingleCellExperiment-class
runDecontX.Rd: colData
runDimReduce.Rd: SingleCellExperiment-class
runDoubletFinder.Rd: SingleCellExperiment-class
runDropletQC.Rd: colData
runEmptyDrops.Rd: SingleCellExperiment-class, colData
runEnrichR.Rd: SingleCellExperiment-class
runFastMNN.Rd: SingleCellExperiment-class, BiocParallelParam-class
runFeatureSelection.Rd: SingleCellExperiment-class
runFindMarker.Rd: SingleCellExperiment-class
runGSVA.Rd: SingleCellExperiment-class
runHarmony.Rd: SingleCellExperiment-class
runKMeans.Rd: SingleCellExperiment-class, colData
runLimmaBC.Rd: SingleCellExperiment-class, assay
runMNNCorrect.Rd: SingleCellExperiment-class, assay,
BiocParallelParam-class
runModelGeneVar.Rd: SingleCellExperiment-class
runPerCellQC.Rd: SingleCellExperiment-class, BiocParallelParam,
colData
runSCANORAMA.Rd: SingleCellExperiment-class, assay
runSCMerge.Rd: SingleCellExperiment-class, colData, assay,
BiocParallelParam-class
runScDblFinder.Rd: SingleCellExperiment-class, colData
runScranSNN.Rd: SingleCellExperiment-class, reducedDim, assay,
altExp, colData, igraph
runScrublet.Rd: SingleCellExperiment-class, colData
runSingleR.Rd: SingleCellExperiment-class
runSoupX.Rd: SingleCellExperiment-class
runTSCAN.Rd: SingleCellExperiment-class
runTSCANClusterDEAnalysis.Rd: SingleCellExperiment-class
runTSCANDEG.Rd: SingleCellExperiment-class
runTSNE.Rd: SingleCellExperiment-class
runUMAP.Rd: SingleCellExperiment-class, BiocParallelParam-class
runVAM.Rd: SingleCellExperiment-class
runZINBWaVE.Rd: SingleCellExperiment-class, colData,
BiocParallelParam-class
sampleSummaryStats.Rd: SingleCellExperiment-class, assay, colData
scaterPCA.Rd: SingleCellExperiment-class, BiocParallelParam-class
scaterlogNormCounts.Rd: logNormCounts
sctkListGeneSetCollections.Rd: GeneSetCollection-class
sctkPythonInstallConda.Rd: conda_install, reticulate, conda_create
sctkPythonInstallVirtualEnv.Rd: virtualenv_install, reticulate,
virtualenv_create
selectSCTKConda.Rd: reticulate
selectSCTKVirtualEnvironment.Rd: reticulate
setRowNames.Rd: SingleCellExperiment-class
setSCTKDisplayRow.Rd: SingleCellExperiment-class
singleCellTK.Rd: SingleCellExperiment-class
subsetSCECols.Rd: SingleCellExperiment-class
subsetSCERows.Rd: SingleCellExperiment-class, altExp
summarizeSCE.Rd: SingleCellExperiment-class
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ...
singleCellTK.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL singleCellTK ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library’ * installing *source* package ‘singleCellTK’ ... ** this is package ‘singleCellTK’ version ‘2.21.1’ ** using staged installation ** R ** data ** exec ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (singleCellTK)
singleCellTK.Rcheck/singleCellTK-Ex.timings
| name | user | system | elapsed | |
| MitoGenes | 0.000 | 0.001 | 0.001 | |
| SEG | 0.002 | 0.001 | 0.003 | |
| calcEffectSizes | 0.061 | 0.004 | 0.065 | |
| combineSCE | 0.261 | 0.008 | 0.292 | |
| computeZScore | 0.098 | 0.002 | 0.101 | |
| convertSCEToSeurat | 1.807 | 0.078 | 1.990 | |
| convertSeuratToSCE | 0.129 | 0.003 | 0.139 | |
| dedupRowNames | 0.025 | 0.002 | 0.026 | |
| detectCellOutlier | 2.433 | 0.037 | 2.569 | |
| diffAbundanceFET | 0.025 | 0.001 | 0.026 | |
| discreteColorPalette | 0.002 | 0.000 | 0.002 | |
| distinctColors | 0.000 | 0.000 | 0.001 | |
| downSampleCells | 0.220 | 0.017 | 0.245 | |
| downSampleDepth | 0.164 | 0.016 | 0.199 | |
| expData-ANY-character-method | 0.045 | 0.002 | 0.047 | |
| expData-set-ANY-character-CharacterOrNullOrMissing-logical-method | 0.057 | 0.002 | 0.060 | |
| expData-set | 0.049 | 0.002 | 0.052 | |
| expData | 0.045 | 0.002 | 0.047 | |
| expDataNames-ANY-method | 0.039 | 0.001 | 0.040 | |
| expDataNames | 0.039 | 0.003 | 0.042 | |
| expDeleteDataTag | 0.019 | 0.001 | 0.020 | |
| expSetDataTag | 0.014 | 0.001 | 0.014 | |
| expTaggedData | 0.012 | 0.001 | 0.013 | |
| exportSCE | 0.010 | 0.001 | 0.012 | |
| exportSCEtoAnnData | 0.046 | 0.002 | 0.048 | |
| exportSCEtoFlatFile | 0.042 | 0.001 | 0.044 | |
| featureIndex | 0.016 | 0.001 | 0.018 | |
| generateSimulatedData | 0.026 | 0.002 | 0.029 | |
| getBiomarker | 0.026 | 0.003 | 0.029 | |
| getDEGTopTable | 0.259 | 0.023 | 0.285 | |
| getDiffAbundanceResults | 0.022 | 0.002 | 0.024 | |
| getEnrichRResult | 0.138 | 0.020 | 3.326 | |
| getFindMarkerTopTable | 0.521 | 0.011 | 0.552 | |
| getMSigDBTable | 0.002 | 0.001 | 0.003 | |
| getPathwayResultNames | 0.012 | 0.002 | 0.014 | |
| getSampleSummaryStatsTable | 0.069 | 0.002 | 0.075 | |
| getSoupX | 0 | 0 | 0 | |
| getTSCANResults | 0.367 | 0.014 | 0.403 | |
| getTopHVG | 0.315 | 0.007 | 0.323 | |
| importAnnData | 0.001 | 0.000 | 0.000 | |
| importBUStools | 0.047 | 0.002 | 0.051 | |
| importCellRanger | 0.299 | 0.012 | 0.329 | |
| importCellRangerV2Sample | 0.047 | 0.001 | 0.048 | |
| importCellRangerV3Sample | 0.084 | 0.005 | 0.090 | |
| importDropEst | 0.068 | 0.002 | 0.073 | |
| importExampleData | 5.253 | 0.503 | 6.746 | |
| importGeneSetsFromCollection | 0.269 | 0.029 | 0.315 | |
| importGeneSetsFromGMT | 0.028 | 0.002 | 0.030 | |
| importGeneSetsFromList | 0.043 | 0.002 | 0.046 | |
| importGeneSetsFromMSigDB | 19.386 | 0.108 | 19.625 | |
| importMitoGeneSet | 0.021 | 0.004 | 0.026 | |
| importOptimus | 0.001 | 0.000 | 0.001 | |
| importSEQC | 0.051 | 0.001 | 0.053 | |
| importSTARsolo | 0.044 | 0.002 | 0.047 | |
| iterateSimulations | 0.070 | 0.004 | 0.077 | |
| listSampleSummaryStatsTables | 0.097 | 0.003 | 0.114 | |
| mergeSCEColData | 0.112 | 0.007 | 0.126 | |
| mouseBrainSubsetSCE | 0.018 | 0.001 | 0.020 | |
| msigdb_table | 0.001 | 0.000 | 0.001 | |
| plotBarcodeRankDropsResults | 1.022 | 0.013 | 1.069 | |
| plotBarcodeRankScatter | 0.301 | 0.017 | 0.330 | |
| plotBatchCorrCompare | 6.491 | 0.051 | 6.836 | |
| plotBatchVariance | 0.176 | 0.006 | 0.186 | |
| plotBcdsResults | 4.100 | 0.098 | 4.459 | |
| plotBubble | 0.288 | 0.004 | 0.301 | |
| plotClusterAbundance | 0.479 | 0.004 | 0.504 | |
| plotCxdsResults | 3.686 | 0.034 | 3.903 | |
| plotDEGHeatmap | 0.751 | 0.010 | 0.789 | |
| plotDEGRegression | 1.493 | 0.018 | 1.533 | |
| plotDEGViolin | 1.770 | 0.046 | 1.832 | |
| plotDEGVolcano | 0.376 | 0.004 | 0.401 | |
| plotDecontXResults | 3.930 | 0.031 | 4.124 | |
| plotDimRed | 0.100 | 0.003 | 0.110 | |
| plotDoubletFinderResults | 19.350 | 0.094 | 20.277 | |
| plotEmptyDropsResults | 2.432 | 0.010 | 2.455 | |
| plotEmptyDropsScatter | 2.326 | 0.010 | 2.349 | |
| plotFindMarkerHeatmap | 1.339 | 0.008 | 1.366 | |
| plotMASTThresholdGenes | 0.444 | 0.011 | 0.491 | |
| plotPCA | 0.131 | 0.002 | 0.134 | |
| plotPathway | 0.243 | 0.004 | 0.253 | |
| plotRunPerCellQCResults | 1.012 | 0.007 | 1.041 | |
| plotSCEBarAssayData | 0.106 | 0.003 | 0.110 | |
| plotSCEBarColData | 0.085 | 0.002 | 0.089 | |
| plotSCEBatchFeatureMean | 0.152 | 0.002 | 0.157 | |
| plotSCEDensity | 0.108 | 0.004 | 0.112 | |
| plotSCEDensityAssayData | 0.097 | 0.002 | 0.109 | |
| plotSCEDensityColData | 0.103 | 0.003 | 0.110 | |
| plotSCEDimReduceColData | 0.280 | 0.004 | 0.292 | |
| plotSCEDimReduceFeatures | 0.130 | 0.003 | 0.144 | |
| plotSCEHeatmap | 0.173 | 0.003 | 0.197 | |
| plotSCEScatter | 0.119 | 0.003 | 0.126 | |
| plotSCEViolin | 0.123 | 0.002 | 0.132 | |
| plotSCEViolinAssayData | 0.158 | 0.004 | 0.166 | |
| plotSCEViolinColData | 0.123 | 0.003 | 0.131 | |
| plotScDblFinderResults | 12.857 | 0.289 | 13.764 | |
| plotScanpyDotPlot | 0.013 | 0.001 | 0.014 | |
| plotScanpyEmbedding | 0.012 | 0.001 | 0.013 | |
| plotScanpyHVG | 0.013 | 0.001 | 0.018 | |
| plotScanpyHeatmap | 0.012 | 0.001 | 0.013 | |
| plotScanpyMarkerGenes | 0.011 | 0.001 | 0.012 | |
| plotScanpyMarkerGenesDotPlot | 0.011 | 0.001 | 0.012 | |
| plotScanpyMarkerGenesHeatmap | 0.011 | 0.002 | 0.013 | |
| plotScanpyMarkerGenesMatrixPlot | 0.012 | 0.001 | 0.014 | |
| plotScanpyMarkerGenesViolin | 0.013 | 0.002 | 0.015 | |
| plotScanpyMatrixPlot | 0.011 | 0.001 | 0.012 | |
| plotScanpyPCA | 0.011 | 0.001 | 0.012 | |
| plotScanpyPCAGeneRanking | 0.011 | 0.001 | 0.013 | |
| plotScanpyPCAVariance | 0.011 | 0.001 | 0.012 | |
| plotScanpyViolin | 0.011 | 0.002 | 0.013 | |
| plotScdsHybridResults | 4.661 | 0.123 | 5.230 | |
| plotScrubletResults | 0.012 | 0.002 | 0.013 | |
| plotSeuratElbow | 0.012 | 0.002 | 0.015 | |
| plotSeuratHVG | 0.012 | 0.002 | 0.014 | |
| plotSeuratJackStraw | 0.012 | 0.001 | 0.015 | |
| plotSeuratReduction | 0.014 | 0.005 | 0.030 | |
| plotSoupXResults | 0.000 | 0.001 | 0.000 | |
| plotTSCANClusterDEG | 1.659 | 0.023 | 1.782 | |
| plotTSCANClusterPseudo | 0.460 | 0.008 | 0.477 | |
| plotTSCANDimReduceFeatures | 0.478 | 0.011 | 0.520 | |
| plotTSCANPseudotimeGenes | 0.555 | 0.010 | 0.616 | |
| plotTSCANPseudotimeHeatmap | 0.446 | 0.008 | 0.477 | |
| plotTSCANResults | 0.429 | 0.007 | 0.449 | |
| plotTSNE | 0.129 | 0.003 | 0.136 | |
| plotTopHVG | 0.212 | 0.004 | 0.222 | |
| plotUMAP | 3.690 | 0.039 | 3.989 | |
| readSingleCellMatrix | 0.003 | 0.000 | 0.003 | |
| reportCellQC | 0.036 | 0.002 | 0.039 | |
| reportDropletQC | 0.012 | 0.001 | 0.014 | |
| reportQCTool | 0.031 | 0.002 | 0.035 | |
| retrieveSCEIndex | 0.015 | 0.002 | 0.019 | |
| runBBKNN | 0 | 0 | 0 | |
| runBarcodeRankDrops | 0.091 | 0.004 | 0.105 | |
| runBcds | 0.592 | 0.056 | 0.664 | |
| runCellQC | 0.033 | 0.003 | 0.037 | |
| runClusterSummaryMetrics | 0.127 | 0.008 | 0.139 | |
| runComBatSeq | 0.168 | 0.010 | 0.188 | |
| runCxds | 0.134 | 0.009 | 0.148 | |
| runCxdsBcdsHybrid | 0.621 | 0.058 | 0.715 | |
| runDEAnalysis | 0.189 | 0.011 | 0.215 | |
| runDecontX | 3.657 | 0.029 | 3.947 | |
| runDimReduce | 0.100 | 0.004 | 0.107 | |
| runDoubletFinder | 17.330 | 0.070 | 18.051 | |
| runDropletQC | 0.013 | 0.004 | 0.021 | |
| runEmptyDrops | 2.427 | 0.017 | 2.480 | |