flowMerge: Cluster Merging for Flow Cytometry Data

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Merging of mixture components for model-based automated gating of flow cytometry data using the flowClust framework. Note: users should have a working copy of flowClust 2.0 installed.

Author
Greg Finak <gfinak@fhcrc.org>, Raphael Gottardo <rgottard@fhcrc.org>
Date of publication
None
Maintainer
Greg Finak <gfinak@fhcrc.org>
License
Artistic-2.0
Version
2.22.0

View on Bioconductor

Man pages

checkForRemoteErrors
Check output of snow clusters for errors
fitPiecewiseLinreg
Fit Piecewise Linear Regression for a list of flowMerge...
fitPiecewiseLinreg-methods
Methods for fitPiecewiseLinreg in flowMerge package
flagOutliers
Update the flagOutliers slot in a flowMerge object
flagOutliers-methods
Methods to update the flagOutliers slot in a flowMerge...
flowClust.res
A flowClust model fitted to the rituximab data for 1:10...
flowMerge-class
Class "flowMerge"
flowMerge-internal
Internal flowMerge functions
flowMerge-package
Merging of mixture components for automated gating of flow...
flowObj
Create a flowObj object from a flowClust and flowFrame object
flowObj-class
Class "flowObj"
initPFlowMerge
Initialize a SNOW cluster for use with flowMerge
map
Map matrix of probabilities to class assignments.
merge
Merge clusters in flow cytometry data
mergeClusters
Cluster merging not meant to be called by the user
mergeClusters2
Cluster merging not meant to be called by the user
merge-methods
Merge mixture components
NENT
Extract the Normalized Entropy
pFlowClust
Parallelized FlowClust
pFlowMerge
Parellel call to flowMerge
plot-methods
Methods for plotting flowMerge and flowObj classes
ptree
Generate a Function to Plot The Merging Tree
show-methods
Describe a flowObj or flowMerge object
split-methods
Split data in a flowMerge object by cluster
summary-methods
Summary methods for flowMerge
updateU
Update uncertainties

Files in this package

flowMerge/DESCRIPTION
flowMerge/NAMESPACE
flowMerge/R
flowMerge/R/SetClasses.R
flowMerge/R/SetMethods.R
flowMerge/R/flowMerge.R
flowMerge/build
flowMerge/build/vignette.rds
flowMerge/data
flowMerge/data/RituximabFlowClustFit.RData
flowMerge/inst
flowMerge/inst/doc
flowMerge/inst/doc/flowMerge.R
flowMerge/inst/doc/flowMerge.Rnw
flowMerge/inst/doc/flowMerge.pdf
flowMerge/man
flowMerge/man/NENT.Rd
flowMerge/man/checkForRemoteErrors.Rd
flowMerge/man/fitPiecewiseLinreg-methods.Rd
flowMerge/man/fitPiecewiseLinreg.Rd
flowMerge/man/flagOutliers-methods.Rd
flowMerge/man/flagOutliers.Rd
flowMerge/man/flowClust.res.Rd
flowMerge/man/flowMerge-class.Rd
flowMerge/man/flowMerge-internal.Rd
flowMerge/man/flowMerge-package.Rd
flowMerge/man/flowObj-class.Rd
flowMerge/man/flowObj.Rd
flowMerge/man/initPFlowMerge.Rd
flowMerge/man/map.Rd
flowMerge/man/merge-methods.Rd
flowMerge/man/merge.Rd
flowMerge/man/mergeClusters.Rd
flowMerge/man/mergeClusters2.Rd
flowMerge/man/pFlowClust.Rd
flowMerge/man/pFlowMerge.Rd
flowMerge/man/plot-methods.Rd
flowMerge/man/ptree.Rd
flowMerge/man/show-methods.Rd
flowMerge/man/split-methods.Rd
flowMerge/man/summary-methods.Rd
flowMerge/man/updateU.Rd
flowMerge/vignettes
flowMerge/vignettes/flowMerge.Rnw