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 |