Combining multitube flow cytometry data by binning


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Documentation for package ‘flowBin’ version 1.23.0

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flowbin-package function to run the entire flowBin pipeline
aml.sample Multitube AML sample as example data for flowBin
amlsample Multitube AML sample as example data for flowBin
bin.labels A 'FlowSample', but with binning information for each tube
bin.labels-method A 'FlowSample', but with binning information for each tube
bin.labels<- A 'FlowSample', but with binning information for each tube
bin.labels<--method A 'FlowSample', but with binning information for each tube
bin.pars A class similar to flowSet, but with extra information needed by flowBin
bin.pars-method A class similar to flowSet, but with extra information needed by flowBin
bin.pars<- A class similar to flowSet, but with extra information needed by flowBin
bin.pars<--method A class similar to flowSet, but with extra information needed by flowBin
BinnedFlowSample A 'FlowSample', but with binning information for each tube
BinnedFlowSample-class A 'FlowSample', but with binning information for each tube
checkQNorm Function to check the quantile normalisation of a FlowSample using flowFP
checkQNorm, Function to check the quantile normalisation of a FlowSample using flowFP
checkQNorm-method Function to check the quantile normalisation of a FlowSample using flowFP
control.tubes A class similar to flowSet, but with extra information needed by flowBin
control.tubes-method A class similar to flowSet, but with extra information needed by flowBin
control.tubes<- A class similar to flowSet, but with extra information needed by flowBin
control.tubes<--method A class similar to flowSet, but with extra information needed by flowBin
eventsInBins Count number of events for each tube in each bin
eventsInBins-method Count number of events for each tube in each bin
flowBin function to run the entire flowBin pipeline
flowFPBin Bin sample using flowFP binning
flowFPBin-method Bin sample using flowFP binning
FlowSample A class similar to flowSet, but with extra information needed by flowBin
FlowSample-class A class similar to flowSet, but with extra information needed by flowBin
getBinExpr Calculate the expression of each bin in a BinnedFlowSample in terms of the measurement markers
getBinExpr-method Calculate the expression of each bin in a BinnedFlowSample in terms of the measurement markers
kMeansBin Bin sample using K-means binning
kMeansBin-method Bin sample using K-means binning
mapBinsKNN Internal function to map bins by KNN
mapBinsKNN-method Internal function to map bins by KNN
measure.pars A class similar to flowSet, but with extra information needed by flowBin
measure.pars-method A class similar to flowSet, but with extra information needed by flowBin
measure.pars<- A class similar to flowSet, but with extra information needed by flowBin
measure.pars<--method A class similar to flowSet, but with extra information needed by flowBin
name A class similar to flowSet, but with extra information needed by flowBin
name-method A class similar to flowSet, but with extra information needed by flowBin
name<- A class similar to flowSet, but with extra information needed by flowBin
name<--method A class similar to flowSet, but with extra information needed by flowBin
quantileNormalise quantileNormalise normalise binning paramaters across all tubes of a flowSample
quantileNormalise-method quantileNormalise normalise binning paramaters across all tubes of a flowSample
removeSparseBins Remove bins from a BinnedFlowSample with few events in them
removeSparseBins-method Remove bins from a BinnedFlowSample with few events in them
show-method A class similar to flowSet, but with extra information needed by flowBin
show-method Methods to view flowBin objects
show-methods Methods to view flowBin objects
tube.set A class similar to flowSet, but with extra information needed by flowBin
tube.set-method A class similar to flowSet, but with extra information needed by flowBin
tube.set<- A class similar to flowSet, but with extra information needed by flowBin
tube.set<--method A class similar to flowSet, but with extra information needed by flowBin