API for acidgenomics/AcidGenerics
Acid Genomics Generics

Global functions
AcidGenerics	Man page
AcidGenerics-package	Man page
EnsemblToNcbi	Man page
GeneToSymbol	Man page
KnownMarkers	Man page
NcbiToEnsembl	Man page
TxToGene	Man page
aggregateCellsToSamples	Man page
aggregateCols	Man page
aggregateRows	Man page
alphaSummary	Man page
alphaThreshold	Man page
alphaThreshold<-	Man page
antiJoin	Man page
as.DESeqDataSet	Man page
as.DESeqTransform	Man page
as.DGEList	Man page
as.DataFrame	Man page
as.Seurat	Man page
as.SingleCellExperiment	Man page
as.SummarizedExperiment	Man page
atomize	Man page
autopadZeros	Man page
barcodeRanksPerSample	Man page
baseMeanThreshold	Man page
baseMeanThreshold<-	Man page
calculateMetrics	Man page
camelCase	Man page
capitalize	Man page
cast	Man page
cellCountsPerCluster	Man page
cellToSample	Man page
cellTypesPerCluster	Man page
cellsPerGeneFusion	Man page
cellsPerMutation	Man page
clusters	Man page
coerceToList	Man page
collapseToString	Man page
collectionNames	Man page
collectionNames<-	Man page
contrastName	Man page
contrastName<-	Man page
contrastNames	Man page
contrastNames<-	Man page
contrastSamples	Man page
convertGenesToSymbols	Man page
convertSampleIdsToNames	Man page
convertSymbolsToGenes	Man page
convertToHuman	Man page
convertTranscriptsToGenes	Man page
correlation	Man page
cpm	Man page
deg	Man page
degIntersection	Man page
degPerContrast	Man page
diffExp	Man page
diffExpPerCluster	Man page
dottedCase	Man page
droplevels2	Man page
encode	Man page
enrichedGeneSets	Man page
euclidean	Man page
excludeContaminatedCells	Man page
excludeNonCancerCells	Man page
excludeNonHumanCells	Man page
excludeProblematicCells	Man page
export	Man page
factorize	Man page
filterCells	Man page
filterNested	Man page
findMarkers	Man page
foldChangeToLogRatio	Man page
fpkm	Man page
fullJoin	Man page
geneFusions	Man page
geneIds	Man page
geneNames	Man page
geneSet	Man page
geneSetNames	Man page
geneSetResults	Man page
geometricMean	Man page
headtail	Man page
humanize	Man page
import	Man page
innerJoin	Man page
integerCounts	Man page
interestingGroups	Man page
interestingGroups<-	Man page
intersectAll	Man page
intersectionMatrix	Man page
join	Man page
kebabCase	Man page
keepOnlyAtomicCols	Man page
leadingEdge	Man page
leftJoin	Man page
lfcShrink	Man page
lfcShrink<-	Man page
lfcShrinkType	Man page
lfcThreshold	Man page
lfcThreshold<-	Man page
logRatioToFoldChange	Man page
makeDimnames	Man page
makeLabel	Man page
makeNames	Man page
makeSampleData	Man page
makeTitle	Man page
makeWords	Man page
mapCells	Man page
mapColnames	Man page
mapGenes	Man page
mapGenesToIds	Man page
mapGenesToRownames	Man page
mapGenesToSymbols	Man page
mapRownames	Man page
markdownPlots	Man page
markdownTables	Man page
matchAll	Man page
matchCellColumn	Man page
matchGeneColumn	Man page
matchNested	Man page
matchRownameColumn	Man page
matchSampleColumn	Man page
matchTranscriptColumn	Man page
melt	Man page
metadata2	Man page
metadata2<-	Man page
metrics	Man page
metricsPerSample	Man page
mutate	Man page
mutateAll	Man page
mutateAt	Man page
mutateIf	Man page
mutations	Man page
nesThreshold	Man page
nesThreshold<-	Man page
nonzeroRowsAndCols	Man page
plot5Prime3PrimeBias	Man page
plotBarcodeRanks	Man page
plotBaseMean	Man page
plotCellCounts	Man page
plotCellCountsPerCluster	Man page
plotCellTypesPerCluster	Man page
plotCells	Man page
plotCleveland	Man page
plotContrastScatter	Man page
plotCorrelation	Man page
plotCorrelationHeatmap	Man page
plotCountDensity	Man page
plotCounts	Man page
plotCountsCorrelation	Man page
plotCountsCorrelationHeatmap	Man page
plotCountsPerBiotype	Man page
plotCountsPerBroadClass	Man page
plotCountsPerCell	Man page
plotCountsPerFeature	Man page
plotCountsVsFeatures	Man page
plotDegHeatmap	Man page
plotDegPca	Man page
plotDegStackedBar	Man page
plotDegUpset	Man page
plotDots	Man page
plotEnrichedGeneSets	Man page
plotEnrichedUpset	Man page
plotExonicMappingRate	Man page
plotFeature	Man page
plotFeatureSaturation	Man page
plotFeaturesDetected	Man page
plotFeaturesPerCell	Man page
plotGenderMarkers	Man page
plotGeneEffect	Man page
plotGeneEffectVsExpression	Man page
plotGeneSet	Man page
plotHeatmap	Man page
plotIntergenicMappingRate	Man page
plotIntronicMappingRate	Man page
plotKnownMarkers	Man page
plotLfc	Man page
plotMa	Man page
plotMappedReads	Man page
plotMappingRate	Man page
plotMarker	Man page
plotMeanSd	Man page
plotMitoRatio	Man page
plotMitoVsCoding	Man page
plotNes	Man page
plotNovelty	Man page
plotPcElbow	Man page
plotPca	Man page
plotPcaCovariates	Man page
plotPseudoVsAlignedCounts	Man page
plotQc	Man page
plotQuantileHeatmap	Man page
plotReadsPerCell	Man page
plotReducedDim	Man page
plotRrnaMappingRate	Man page
plotStackedBarPlot	Man page
plotSums	Man page
plotTopGeneEffectPerCell	Man page
plotTopGeneEffectPerGroup	Man page
plotTopMarkers	Man page
plotTotalCounts	Man page
plotTotalReads	Man page
plotTsne	Man page
plotUmap	Man page
plotUpset	Man page
plotViolin	Man page
plotVolcano	Man page
plotWaterfall	Man page
plotZerosVsDepth	Man page
predictSensitivity	Man page
rankedMatrix	Man page
rbindToDataFrame	Man page
relativeLogExpression	Man page
removeNa	Man page
results	Man page
resultsDiff	Man page
resultsMatrix	Man page
resultsNames	Man page
resultsNames<-	Man page
resultsTables	Man page
rightJoin	Man page
sampleData	Man page
sampleData<-	Man page
sanitizeNa	Man page
sanitizePercent	Man page
select	Man page
selectCells	Man page
selectIf	Man page
selectSamples	Man page
sem	Man page
semiJoin	Man page
sentenceCase	Man page
showHeader	Man page
slotAlignedCounts	Man page
snakeCase	Man page
splitByLevel	Man page
standardizeCells	Man page
stripExonVersions	Man page
stripGeneVersions	Man page
stripTranscriptVersions	Man page
subsetPerSample	Man page
tmm	Man page
tnbc	Man page
topCellsPerSample	Man page
topMarkers	Man page
tpm	Man page
transcriptIds	Man page
transcriptNames	Man page
transformType	Man page
transmuteAt	Man page
transmuteIf	Man page
unfactorize	Man page
uniteInterestingGroups	Man page
unlist2	Man page
unnest2	Man page
upperCamelCase	Man page
zerosVsDepth	Man page
zscore	Man page