flowQ: Quality control for flow cytometry

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Provides quality control and quality assessment tools for flow cytometry data.

Author
R. Gentleman, F. Hahne, J. Kettman, N. Le Meur, N. Gopalakrishnan
Date of publication
None
Maintainer
Mike Jiang <wjiang2@fhcrc.org>
License
Artistic-2.0
Version
1.34.0

View on Bioconductor

Man pages

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

Files in this package

flowQ/.BBSoptions
flowQ/DESCRIPTION
flowQ/NAMESPACE
flowQ/R
flowQ/R/AllClasses.R
flowQ/R/AllGenerics.R
flowQ/R/aggregator-accessors.R
flowQ/R/evaluateProcess.R
flowQ/R/flowSet-methods.R
flowQ/R/misc-methods.R
flowQ/R/qaGraph-accessors.R
flowQ/R/qaProcess-accessors.R
flowQ/R/qaProcessFunctions.R
flowQ/R/qaReport.R
flowQ/R/zzz.R
flowQ/build
flowQ/build/vignette.rds
flowQ/data
flowQ/data/datalist
flowQ/data/qData.rda
flowQ/inst
flowQ/inst/doc
flowQ/inst/doc/DataQualityAssessment.R
flowQ/inst/doc/DataQualityAssessment.Rnw
flowQ/inst/doc/DataQualityAssessment.pdf
flowQ/inst/doc/Extending-flowQ.R
flowQ/inst/doc/Extending-flowQ.Rnw
flowQ/inst/doc/Extending-flowQ.pdf
flowQ/inst/htmlTemplates
flowQ/inst/htmlTemplates/bulbGreen.png
flowQ/inst/htmlTemplates/bulbRed.png
flowQ/inst/htmlTemplates/bulbYellow.png
flowQ/inst/htmlTemplates/qaReport.css
flowQ/inst/htmlTemplates/qaReport.js
flowQ/inst/htmlTemplates/scalelefteven.gif
flowQ/inst/htmlTemplates/scaleleftodd.gif
flowQ/inst/htmlTemplates/scalemiddleeven.gif
flowQ/inst/htmlTemplates/scalemiddleodd.gif
flowQ/inst/htmlTemplates/scalerighteven.gif
flowQ/inst/htmlTemplates/scalerightodd.gif
flowQ/inst/htmlTemplates/scalesingleeven.gif
flowQ/inst/htmlTemplates/scalesingleodd.gif
flowQ/man
flowQ/man/aggregatorList-class.Rd
flowQ/man/binaryAggregator-class.Rd
flowQ/man/discreteAggregator-class.Rd
flowQ/man/evaluateProcess.Rd
flowQ/man/factorAggregator-class.Rd
flowQ/man/flowQ-package.Rd
flowQ/man/locateDuplicatedParameters.Rd
flowQ/man/normalizeSets.Rd
flowQ/man/numericAggregator-class.Rd
flowQ/man/outlier-class.Rd
flowQ/man/outlierResult-class.Rd
flowQ/man/outliers-methods.Rd
flowQ/man/preProcessFlowList.Rd
flowQ/man/qData.Rd
flowQ/man/qaAggregator-class.Rd
flowQ/man/qaGraph-class.Rd
flowQ/man/qaGraphList-class.Rd
flowQ/man/qaProcess-class.Rd
flowQ/man/qaProcess.2DStatsPlot.Rd
flowQ/man/qaProcess.BoundaryPlot.Rd
flowQ/man/qaProcess.DensityPlot.Rd
flowQ/man/qaProcess.ECDFPlot.Rd
flowQ/man/qaProcess.KLDistPlot.Rd
flowQ/man/qaProcess.cellnumber.Rd
flowQ/man/qaProcess.marginevents.Rd
flowQ/man/qaProcess.timeflow.Rd
flowQ/man/qaProcess.timeline.Rd
flowQ/man/qaProcessFrame-class.Rd
flowQ/man/qaProcessSummary-class.Rd
flowQ/man/qaReport.Rd
flowQ/man/rangeAggregator-class.Rd
flowQ/man/stringAggregator-class.Rd
flowQ/man/txtFormatQAObject.Rd
flowQ/man/validProcess.Rd
flowQ/man/writeQAReport.Rd
flowQ/man/writeQATextReport.Rd
flowQ/vignettes
flowQ/vignettes/DataQualityAssessment.Rnw
flowQ/vignettes/Extending-flowQ.Rnw
flowQ/vignettes/binary.jpg
flowQ/vignettes/cytoref.bib
flowQ/vignettes/discrete.jpg
flowQ/vignettes/factor.jpg
flowQ/vignettes/flowQStructure.pdf
flowQ/vignettes/images
flowQ/vignettes/images/bulbGreen.png
flowQ/vignettes/images/bulbRed.png
flowQ/vignettes/images/bulbYellow.png
flowQ/vignettes/images/qaReport.css
flowQ/vignettes/images/qaReport.js
flowQ/vignettes/numeric.jpg
flowQ/vignettes/range.jpg
flowQ/vignettes/stainInfo.pdf
flowQ/vignettes/string.jpg