flowMerge-class: Class "flowMerge"
In RGLab/flowMerge: Cluster Merging for Flow Cytometry Data

Description Objects from the Class Slots Extends Methods Author(s) References See Also

A class to represent flowMerge objects

The object unites the flowMerge model output and the data being modeled and contains additional slots for various characteristics of a merged cluster solution, including the entropy of clustering.

merged:: The number of observations merged at the current step in the algorithm.
mtree:: A tree–structured graph representing the order of merged components in the model. Inspired by SPADE. (Bendall et al.)
entropy:: The entropy of clustering of the current solution.
DATA:: An environment whose first element contains the flowFrame with the data modeled by this flowMerge object
expName:: See the flowClust package for details
varNames:: See the flowClust package for details
K:: The number of clusters in the merged solution. See the flowClust package for details
w:: The proportions for each component in the merged solution. See the flowClust package for details
mu:: The means of the components in the merged solution. See the flowClust package for details
sigma:: The covraiances of the components in the merged solution. See the flowClust package for details
lambda:: See the flowClust package for details
nu:: See the flowClust package for details
z:: See the flowClust package for details
u:: The uncertainties for each data point.
label:: See the flowClust package for details
uncertainty:: See the flowClust package for details
ruleOutliers:: See the flowClust package for details
flagOutliers:: See the flowClust package for details
rm.min:: See the flowClust package for details
rm.max:: See the flowClust package for details
logLike:: See the flowClust package for details
BIC:: See the flowClust package for details
ICL:: See the flowClust package for details

Class "flowObj", directly. Class "flowClust", by class "flowObj", distance 2.

getData: signature(obj = "flowMerge"): Retrieves the flowFrame in the DATA environment slot.
plot: signature(x = "flowMerge", y = "missing"): Plots the clusters in this object.
summary: signature(x="flowMerge"): Prints a summary of the object.
show: signature(x="flowMerge"): Prints information about the object.

Greg Finak <greg.finak@ircm.qc.ca>

Finak G, Bashasharti A, Brinkmann R, Gottardo R. Merging Mixture Model Components for Improved Cell Population Identification in High Throughput Flow Cytometry Data (Submitted)

flowObj-class

RGLab/flowMerge documentation built on Aug. 10, 2020, 12:52 p.m.