flowQ v1.32.0
by MJiang
Quality control for flow cytometry
Provides quality control and quality assessment tools for flow
cytometry data.
Functions in flowQ
| Name | Description | |
| qaProcess.timeline | Create QA process of type 'timeline' | |
| qaProcess.ECDFPlot | Creates a QA process for comparisons of ECDF's across multiple samples | |
| qaProcess.timeflow | Create QA process of type 'timeflow' | |
| binaryAggregator-class | Class "binaryAggregator" | |
| outliers-methods | ~~ Methods for Function outliers in Package `.GlobalEnv' ~~ | |
| writeQAReport | Create HTML report for (lists of) qaProcess objects | |
| qaAggregator-class | Abstraction of the possible outcomes of a QA process | |
| qaProcess.marginevents | Create QA process of type 'marginevents' | |
| qaProcess.BoundaryPlot | Creates a QA process for comparison of the percentage of boundary events for the specified parameters across multiple samples | |
| qaReport | Create HTML report using one or several QA process function(s) | |
| writeQATextReport | Create tab delimited text files for (lists of) qaProcess objects | |
| flowQ-package | Quality control for flow cytometry | |
| qaProcess.cellnumber | Create QA process of type 'cellnumber' | |
| locateDuplicatedParameters | Locate Duplicated Parameters | |
| qData | Data for demonstrating QA processes that compares dye parameters from each patient across multiple aliquots | |
| scatter_gate | Singlets Detection | |
| flowQB-package | Automated Quadratic Characterization of Flow Cytometer Instrument Sensitivity: Q, B and CV-instrinsic calculations. | |
| find_peak | Peak Detection | |
| evaluateProcess | Evaluate QA processes | |
| factorAggregator-class | Class "factorAggregator" | |
| qaProcess.DensityPlot | Creates a QA process for comparisons of density plots across multiple samples | |
| qaProcess-class | Abstraction of the results of a QA process | |
| BEADflowQBCalculation | QB Calculation for Beads | |
| qaProcess.KLDistPlot | Creates a QA process for comparisons of KL Distances across multiple samples | |
| qaProcess.2DStatsPlot | Creates a QA process for 2D summary statistic comparisons across multiple samples | |
| LEDflowQBCalculation | QB Calculation for LEDs | |
| numericAggregator-class | Class "numericAggregator" | |
| outlier-class | Virtual Class "outlier" | |
| validProcess | Validate a QAProcess object | |
| qaProcessSummary | Class "qaProcessSummary" | |
| preProcessFlowList | Preprocess a list of flowSets to add empty flowFrames for patients in which certain aliquots are missing | |
| outlierResult-class | Class "outlierResult" | |
| aggregatorList-class | Class "aggregatorList" | |
| qaGraphList-class | Class "qaGraphList" | |
| qaGraph-class | Class "qaGraph" | |
| normailzeSets | Locate Duplicated Parameters | |
| qaProcessFrame-class | Class "qaProcessFrame" | |
| discreteAggregator-class | Class "discreteAggregator" | |
| rangeAggregator-class | Class "rangeAggregator" | |
| stringAggregator-class | Class "stringAggregator" | |
| txtFormatQAObject | Formats results contained in QA process objects into a data frame with appropriate row and column names | |
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Details
| Type | Package |
| SystemRequirements | ImageMagick |
| License | Artistic-2.0 |
| biocViews | Infrastructure, FlowCytometry, CellBasedAssays |
| depends | base (>= 2.10.0) , BiocGenerics , bioDist , flowViz , lattice , latticeExtra , methods , mvoutlier , outliers , parody , R (>= 2.10.0) , RColorBrewer |
| imports | flowCore , geneplotter , IRanges |
| suggests | flowStats |
| Contributors | R. Gentleman, F. Hahne, J. Kettman, N. Meur, N. Gopalakrishnan |
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