Files in acidgenomics/bioverbs
Acid Genomics Generics

.Rbuildignore
.gitignore
.lintr
AcidGenerics.Rproj
CONTRIBUTING.md
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md R/aggregateCellsToSamples.R R/aggregateCols.R R/aggregateRows.R R/alphaSummary.R R/alphaThreshold.R R/as.DataFrame.R R/as.SummarizedExperiment.R R/atomize.R R/autopadZeros.R R/barcodeRanksPerSample.R R/baseMeanThreshold.R R/calculateMetrics.R R/camelCase.R R/capitalize.R R/cell2sample.R R/cellCountsPerCluster.R R/cellTypesPerCluster.R R/clusters.R R/coerceToList.R R/collapseToString.R R/collectionNames.R R/contrastName.R R/contrastNames.R R/contrastSamples.R R/convertGenesToSymbols.R R/convertSampleIDsToNames.R R/convertSymbolsToGenes.R R/convertToHuman.R R/convertTranscriptsToGenes.R R/correlation.R R/cpm.R R/deg.R R/degIntersection.R R/degPerContrast.R R/deprecated.R R/diffExp.R R/diffExpPerCluster.R R/dottedCase.R R/encode.R R/enrichedGeneSets.R R/export.R R/factorize.R R/filterCells.R R/findMarkers.R R/foldChangeToLogRatio.R R/fpkm.R R/geneNames.R R/geneSet.R R/geneSetNames.R R/geneSetResults.R R/geometricMean.R R/headtail.R R/humanize.R R/interestingGroups.R R/intersectAll.R R/intersectionMatrix.R R/join.R R/kebabCase.R R/leadingEdge.R R/lfcShrink.R R/lfcShrinkType.R R/lfcThreshold.R R/logRatioToFoldChange.R R/makeDimnames.R R/makeLabel.R R/makeNames.R R/makeTitle.R R/makeWords.R R/mapCells.R R/mapColnames.R R/mapGenes.R R/mapGenesToIDs.R R/mapGenesToRownames.R R/mapGenesToSymbols.R R/mapRownames.R R/markdown.R R/matchRowNameColumn.R R/mcolnames.R R/melt.R R/metadata2.R R/metrics.R R/metricsPerSample.R R/mutate.R R/nesThreshold.R R/nonzeroRowsAndCols.R R/package.R R/plot5Prime3PrimeBias.R R/plotBarcodeRanks.R R/plotBaseMean.R R/plotCellCounts.R R/plotCellCountsPerCluster.R R/plotCellTypesPerCluster.R R/plotCells.R R/plotCorrelationHeatmap.R R/plotCountDensity.R R/plotCounts.R R/plotCountsCorrelation.R R/plotCountsCorrelationHeatmap.R R/plotCountsPerBiotype.R R/plotCountsPerBroadClass.R R/plotCountsPerCell.R R/plotCountsPerFeature.R R/plotCountsPerGene.R R/plotCountsVsFeatures.R R/plotDEGHeatmap.R R/plotDEGPCA.R R/plotDEGStackedBar.R R/plotDEGUpset.R R/plotDots.R R/plotEnrichedGeneSets.R R/plotEnrichedUpset.R R/plotExonicMappingRate.R R/plotFeature.R R/plotFeaturesDetected.R R/plotFeaturesPerCell.R R/plotGenderMarkers.R R/plotGeneSaturation.R R/plotGeneSet.R R/plotHeatmap.R R/plotIntergenicMappingRate.R R/plotIntronicMappingRate.R R/plotKnownMarkers.R R/plotLFC.R R/plotMappedReads.R R/plotMappingRate.R R/plotMarker.R R/plotMeanSD.R R/plotMitoRatio.R R/plotMitoVsCoding.R R/plotNES.R R/plotNovelty.R R/plotPCACovariates.R R/plotPCElbow.R R/plotQC.R R/plotQuantileHeatmap.R R/plotRRNAMappingRate.R R/plotReadCountsPerCell.R R/plotReducedDim.R R/plotStackedBarPlot.R R/plotSums.R R/plotTSNE.R R/plotTopMarkers.R R/plotTotalCounts.R R/plotTotalReads.R R/plotUMAP.R R/plotUpset.R R/plotViolin.R R/plotVolcano.R R/plotWaterfall.R R/plotZerosVsDepth.R R/relativeLogExpression.R R/removeNA.R R/results.R R/resultsDiff.R R/resultsMatrix.R R/resultsNames.R R/resultsTables.R R/sampleData.R R/sanitizeNA.R R/sanitizePercent.R R/select.R R/selectSamples.R R/sem.R R/sentenceCase.R R/snakeCase.R R/splitByLevel.R R/standardizeCells.R R/stripTranscriptVersions.R R/subsetPerSample.R R/tmm.R R/topCellsPerSample.R R/topMarkers.R R/topTables.R R/tpm.R R/transformType.R R/uniteInterestingGroups.R R/upperCamelCase.R R/zerosVsDepth.R README.md
_pkgdown.yml
cran-comments.md
docs/404.html
docs/CNAME
docs/CONTRIBUTING.html
docs/LICENSE-text.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/extra.css
docs/index.html
docs/link.svg
docs/news/index.html
docs/news/news-0.1.html
docs/news/news-0.2.html
docs/news/news-0.3.html
docs/news/news-0.4.html
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/AcidGenerics-package.html
docs/reference/Rplot001.png
docs/reference/aggregateCellsToSamples.html
docs/reference/aggregateCols.html
docs/reference/aggregateRows.html
docs/reference/alphaSummary.html
docs/reference/alphaThreshold.html
docs/reference/as.DataFrame.html
docs/reference/as.SummarizedExperiment.html
docs/reference/atomize.html
docs/reference/autopadZeros.html
docs/reference/barcodeRanksPerSample.html
docs/reference/baseMeanThreshold.html
docs/reference/calculateMetrics.html
docs/reference/camelCase.html
docs/reference/capitalize.html
docs/reference/cell2sample.html
docs/reference/cellCountsPerCluster.html
docs/reference/cellTypesPerCluster.html
docs/reference/clusters.html
docs/reference/coerceToList.html
docs/reference/collapseToString.html
docs/reference/collectionNames.html
docs/reference/contrastName.html
docs/reference/contrastNames.html
docs/reference/contrastSamples.html
docs/reference/convertGenesToSymbols.html
docs/reference/convertSampleIDsToNames.html
docs/reference/convertSymbolsToGenes.html
docs/reference/convertToHuman.html
docs/reference/convertTranscriptsToGenes.html
docs/reference/correlation.html
docs/reference/cpm.html
docs/reference/defunct.html
docs/reference/deg.html
docs/reference/degIntersection.html
docs/reference/degPerContrast.html
docs/reference/deprecated.html
docs/reference/diffExp.html
docs/reference/diffExpPerCluster.html
docs/reference/dottedCase.html
docs/reference/encode.html
docs/reference/enrichedGeneSets.html
docs/reference/export.html
docs/reference/factorize.html
docs/reference/filterCells.html
docs/reference/findMarkers.html
docs/reference/foldChangeToLogRatio.html
docs/reference/fpkm.html
docs/reference/geneNames.html
docs/reference/geneSet.html
docs/reference/geneSetNames.html
docs/reference/geneSetResults.html
docs/reference/geometricMean.html
docs/reference/headtail.html
docs/reference/humanize.html
docs/reference/index.html
docs/reference/interestingGroups.html
docs/reference/intersectAll.html
docs/reference/intersectionMatrix.html
docs/reference/join.html
docs/reference/kebabCase.html
docs/reference/leadingEdge.html
docs/reference/lfcShrink.html
docs/reference/lfcShrinkType.html
docs/reference/lfcThreshold.html
docs/reference/logRatioToFoldChange.html
docs/reference/makeDimnames.html
docs/reference/makeLabel.html
docs/reference/makeNames.html
docs/reference/makeTitle.html
docs/reference/makeWords.html
docs/reference/mapCells.html
docs/reference/mapColnames.html
docs/reference/mapGenes.html
docs/reference/mapGenesToIDs.html
docs/reference/mapGenesToRownames.html
docs/reference/mapGenesToSymbols.html
docs/reference/mapRownames.html
docs/reference/markdown.html
docs/reference/matchRowNameColumn.html
docs/reference/mcolnames.html
docs/reference/melt.html
docs/reference/metadata2.html
docs/reference/metrics.html
docs/reference/metricsPerSample.html
docs/reference/mutate.html
docs/reference/nesThreshold.html
docs/reference/nonzeroRowsAndCols.html
docs/reference/plot5Prime3PrimeBias.html
docs/reference/plotBarcodeRanks.html
docs/reference/plotBaseMean.html
docs/reference/plotCellCounts.html
docs/reference/plotCellCountsPerCluster.html
docs/reference/plotCellTypesPerCluster.html
docs/reference/plotCells.html
docs/reference/plotCorrelationHeatmap.html
docs/reference/plotCountDensity.html
docs/reference/plotCounts.html
docs/reference/plotCountsCorrelation.html
docs/reference/plotCountsCorrelationHeatmap.html
docs/reference/plotCountsPerBiotype.html
docs/reference/plotCountsPerBroadClass.html
docs/reference/plotCountsPerCell.html
docs/reference/plotCountsPerFeature.html
docs/reference/plotCountsPerGene.html
docs/reference/plotCountsVsFeatures.html
docs/reference/plotDEGHeatmap.html
docs/reference/plotDEGPCA.html
docs/reference/plotDEGStackedBar.html
docs/reference/plotDEGUpset.html
docs/reference/plotDots.html
docs/reference/plotEnrichedGeneSets.html
docs/reference/plotEnrichedUpset.html
docs/reference/plotExonicMappingRate.html
docs/reference/plotFeature.html
docs/reference/plotFeaturesDetected.html
docs/reference/plotFeaturesPerCell.html
docs/reference/plotGenderMarkers.html
docs/reference/plotGeneSaturation.html
docs/reference/plotGeneSet.html
docs/reference/plotHeatmap.html
docs/reference/plotIntergenicMappingRate.html
docs/reference/plotIntronicMappingRate.html
docs/reference/plotKnownMarkers.html
docs/reference/plotLFC.html
docs/reference/plotMappedReads.html
docs/reference/plotMappingRate.html
docs/reference/plotMarker.html
docs/reference/plotMeanSD.html
docs/reference/plotMitoRatio.html
docs/reference/plotMitoVsCoding.html
docs/reference/plotNES.html
docs/reference/plotNovelty.html
docs/reference/plotPCACovariates.html
docs/reference/plotPCElbow.html
docs/reference/plotQC.html
docs/reference/plotQuantileHeatmap.html
docs/reference/plotRRNAMappingRate.html
docs/reference/plotReadsPerCell.html
docs/reference/plotReducedDim.html
docs/reference/plotStackedBarPlot.html
docs/reference/plotSums.html
docs/reference/plotTSNE.html
docs/reference/plotTopMarkers.html
docs/reference/plotTotalCounts.html
docs/reference/plotTotalReads.html
docs/reference/plotUMAP.html
docs/reference/plotUpset.html
docs/reference/plotViolin.html
docs/reference/plotVolcano.html
docs/reference/plotWaterfall.html
docs/reference/plotZerosVsDepth.html
docs/reference/relativeLogExpression.html
docs/reference/removeNA.html
docs/reference/results.html
docs/reference/resultsDiff.html
docs/reference/resultsMatrix.html
docs/reference/resultsNames.html
docs/reference/resultsTables.html
docs/reference/sampleData.html
docs/reference/sanitizeNA.html
docs/reference/sanitizePercent.html
docs/reference/select.html
docs/reference/selectSamples.html
docs/reference/sem.html
docs/reference/sentenceCase.html
docs/reference/snakeCase.html
docs/reference/splitByLevel.html
docs/reference/standardizeCells.html
docs/reference/stripTranscriptVersions.html
docs/reference/subsetPerSample.html
docs/reference/tmm.html
docs/reference/topCellsPerSample.html
docs/reference/topMarkers.html
docs/reference/topTables.html
docs/reference/tpm.html
docs/reference/transformType.html
docs/reference/uniteInterestingGroups.html
docs/reference/upperCamelCase.html
docs/reference/zerosVsDepth.html
man/AcidGenerics-package.Rd man/aggregateCellsToSamples.Rd man/aggregateCols.Rd man/aggregateRows.Rd man/alphaSummary.Rd man/alphaThreshold.Rd man/as.DataFrame.Rd man/as.SummarizedExperiment.Rd man/atomize.Rd man/autopadZeros.Rd man/barcodeRanksPerSample.Rd man/baseMeanThreshold.Rd man/calculateMetrics.Rd man/camelCase.Rd man/capitalize.Rd man/cell2sample.Rd man/cellCountsPerCluster.Rd man/cellTypesPerCluster.Rd man/clusters.Rd man/coerceToList.Rd man/collapseToString.Rd man/collectionNames.Rd man/contrastName.Rd man/contrastNames.Rd man/contrastSamples.Rd man/convertGenesToSymbols.Rd man/convertSampleIDsToNames.Rd man/convertSymbolsToGenes.Rd man/convertToHuman.Rd man/convertTranscriptsToGenes.Rd man/correlation.Rd man/cpm.Rd man/defunct.Rd man/deg.Rd man/degIntersection.Rd man/degPerContrast.Rd man/deprecated.Rd man/diffExp.Rd man/diffExpPerCluster.Rd man/dottedCase.Rd man/encode.Rd man/enrichedGeneSets.Rd man/export.Rd man/factorize.Rd man/filterCells.Rd man/findMarkers.Rd man/foldChangeToLogRatio.Rd man/fpkm.Rd man/geneNames.Rd man/geneSet.Rd man/geneSetNames.Rd man/geneSetResults.Rd man/geometricMean.Rd man/headtail.Rd man/humanize.Rd man/interestingGroups.Rd man/intersectAll.Rd man/intersectionMatrix.Rd man/join.Rd man/kebabCase.Rd man/leadingEdge.Rd man/lfcShrink.Rd man/lfcShrinkType.Rd man/lfcThreshold.Rd man/logRatioToFoldChange.Rd man/makeDimnames.Rd man/makeLabel.Rd man/makeNames.Rd man/makeTitle.Rd man/makeWords.Rd man/mapCells.Rd man/mapColnames.Rd man/mapGenes.Rd man/mapGenesToIDs.Rd man/mapGenesToRownames.Rd man/mapGenesToSymbols.Rd man/mapRownames.Rd man/markdown.Rd man/matchRowNameColumn.Rd man/mcolnames.Rd man/melt.Rd man/metadata2.Rd man/metrics.Rd man/metricsPerSample.Rd man/mutate.Rd man/nesThreshold.Rd man/nonzeroRowsAndCols.Rd man/plot5Prime3PrimeBias.Rd man/plotBarcodeRanks.Rd man/plotBaseMean.Rd man/plotCellCounts.Rd man/plotCellCountsPerCluster.Rd man/plotCellTypesPerCluster.Rd man/plotCells.Rd man/plotCorrelationHeatmap.Rd man/plotCountDensity.Rd man/plotCounts.Rd man/plotCountsCorrelation.Rd man/plotCountsCorrelationHeatmap.Rd man/plotCountsPerBiotype.Rd man/plotCountsPerBroadClass.Rd man/plotCountsPerCell.Rd man/plotCountsPerFeature.Rd man/plotCountsPerGene.Rd man/plotCountsVsFeatures.Rd man/plotDEGHeatmap.Rd man/plotDEGPCA.Rd man/plotDEGStackedBar.Rd man/plotDEGUpset.Rd man/plotDots.Rd man/plotEnrichedGeneSets.Rd man/plotEnrichedUpset.Rd man/plotExonicMappingRate.Rd man/plotFeature.Rd man/plotFeaturesDetected.Rd man/plotFeaturesPerCell.Rd man/plotGenderMarkers.Rd man/plotGeneSaturation.Rd man/plotGeneSet.Rd man/plotHeatmap.Rd man/plotIntergenicMappingRate.Rd man/plotIntronicMappingRate.Rd man/plotKnownMarkers.Rd man/plotLFC.Rd man/plotMappedReads.Rd man/plotMappingRate.Rd man/plotMarker.Rd man/plotMeanSD.Rd man/plotMitoRatio.Rd man/plotMitoVsCoding.Rd man/plotNES.Rd man/plotNovelty.Rd man/plotPCACovariates.Rd man/plotPCElbow.Rd man/plotQC.Rd man/plotQuantileHeatmap.Rd man/plotRRNAMappingRate.Rd man/plotReadsPerCell.Rd man/plotReducedDim.Rd man/plotStackedBarPlot.Rd man/plotSums.Rd man/plotTSNE.Rd man/plotTopMarkers.Rd man/plotTotalCounts.Rd man/plotTotalReads.Rd man/plotUMAP.Rd man/plotUpset.Rd man/plotViolin.Rd man/plotVolcano.Rd man/plotWaterfall.Rd man/plotZerosVsDepth.Rd man/relativeLogExpression.Rd man/removeNA.Rd man/results.Rd man/resultsDiff.Rd man/resultsMatrix.Rd man/resultsNames.Rd man/resultsTables.Rd man/sampleData.Rd man/sanitizeNA.Rd man/sanitizePercent.Rd man/select.Rd man/selectSamples.Rd man/sem.Rd man/sentenceCase.Rd man/snakeCase.Rd man/splitByLevel.Rd man/standardizeCells.Rd man/stripTranscriptVersions.Rd man/subsetPerSample.Rd man/tmm.Rd man/topCellsPerSample.Rd man/topMarkers.Rd man/topTables.Rd man/tpm.Rd man/transformType.Rd man/uniteInterestingGroups.Rd man/upperCamelCase.Rd man/zerosVsDepth.Rd
pkgdown/extra.css
acidgenomics/bioverbs documentation built on Nov. 28, 2020, 5:23 a.m.