Quality control for flow cytometry


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Documentation for package ‘flowQ’ version 1.16.0

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flowQ-package Quality control for flow cytometry
aggregatorList Class "aggregatorList"
aggregatorList-class Class "aggregatorList"
binaryAggregator Class "binaryAggregator"
binaryAggregator-class Class "binaryAggregator"
discreteAggregator Class "discreteAggregator"
discreteAggregator-class Class "discreteAggregator"
evaluateProcess Evaluate QA processes
factorAggregator Class "factorAggregator"
factorAggregator-class Class "factorAggregator"
flowQ Quality control for flow cytometry
initialize-method Class "aggregatorList"
initialize-method Class "qaGraph"
initialize-method Class "qaGraphList"
initialize-method Abstraction of the results of a QA process
initialize-method Class "qaProcessFrame"
locateDuplicatedParameters Locate Duplicated Parameters
names-method Class "qaGraph"
normalizeSets Locate Duplicated Parameters
numericAggregator Class "numericAggregator"
numericAggregator-class Class "numericAggregator"
outlier-class Virtual Class "outlier"
outlierResult-class Class "outlierResult"
outliers ~~ Methods for Function outliers in Package '.GlobalEnv' ~~
outliers-method ~~ Methods for Function outliers in Package '.GlobalEnv' ~~
outliers-methods ~~ Methods for Function outliers in Package '.GlobalEnv' ~~
preProcessFlowList Preprocess a list of flowSets to add empty flowFrames for patients in which certain aliquots are missing
qaAggregator Abstraction of the possible outcomes of a QA process
qaAggregator-class Abstraction of the possible outcomes of a QA process
qaGraph Class "qaGraph"
qaGraph-class Class "qaGraph"
qaGraphList Class "qaGraphList"
qaGraphList-class Class "qaGraphList"
qaProcess Abstraction of the results of a QA process
qaProcess-class Abstraction of the results of a QA process
qaProcess.2DStatsPlot Creates a QA process for 2D summary statistic comparisons across multiple samples
qaProcess.BoundaryPlot Creates a QA process for comparison of the percentage of boundary events for the specified parameters across multiple samples
qaProcess.cellnumber Create QA process of type 'cellnumber'
qaProcess.DensityPlot Creates a QA process for comparisons of density plots across multiple samples
qaProcess.ECDFPlot Creates a QA process for comparisons of ECDF's across multiple samples
qaProcess.KLDistPlot Creates a QA process for comparisons of KL Distances across multiple samples
qaProcess.marginevents Create QA process of type 'marginevents'
qaProcess.timeflow Create QA process of type 'timeflow'
qaProcess.timeline Create QA process of type 'timeline'
qaProcessFrame Class "qaProcessFrame"
qaProcessFrame-class Class "qaProcessFrame"
qaProcessSummary Class "qaProcessSummary"
qaProcessSummary-class Class "qaProcessSummary"
qaReport Create HTML report using one or several QA process function(s)
qData Data for demonstrating QA processes that compares dye parameters from each patient across multiple aliquots
rangeAggregator Class "rangeAggregator"
rangeAggregator-class Class "rangeAggregator"
show-method Class "aggregatorList"
show-method Class "binaryAggregator"
show-method Class "discreteAggregator"
show-method Class "factorAggregator"
show-method Class "numericAggregator"
show-method Class "qaGraph"
show-method Class "qaGraphList"
show-method Abstraction of the results of a QA process
show-method Class "qaProcessFrame"
show-method Class "qaProcessSummary"
show-method Class "rangeAggregator"
show-method Class "stringAggregator"
stringAggregator Class "stringAggregator"
stringAggregator-class Class "stringAggregator"
txtFormatQAObject Formats results contained in QA process objects into a data frame with appropriate row and column names
validProcess Validate a QAProcess object
writeLines-method Class "binaryAggregator"
writeLines-method Class "discreteAggregator"
writeLines-method Class "factorAggregator"
writeLines-method Class "numericAggregator"
writeLines-method Class "qaProcessSummary"
writeLines-method Class "rangeAggregator"
writeLines-method Class "stringAggregator"
writeLines-method Create HTML report for (lists of) qaProcess objects
writeQAReport Create HTML report for (lists of) qaProcess objects
writeQATextReport Create tab delimited text files for (lists of) qaProcess objects