flowClust-package: Clustering for Flow Cytometry

In RGLab/flowClust: Clustering for Flow Cytometry

Clustering for Flow Cytometry

Description

Robust model-based clustering using a t mixture model with Box-Cox transformation.

Details

Package:	flowClust
Type:	Package
Version:	2.0.0
Depends:	R(>= 2.5.0), methods, mnormt, mclust, ellipse, Biobase, flowCore
Collate:	SetClasses.R SetMethods.R plot.R flowClust.R SimulateMixture.R
biocViews:	Clustering, Statistics, Visualization
License:	Artistic-2.0
Built:	R 2.6.1; universal-apple-darwin8.10.1; 2008-03-26 20:54:42; unix

Index

list(list("box"))

Box-Cox Transformation

list(list("density,flowClust-method"))

Grid of Density Values for the Fitted t Mixture Model with Box-Cox Transformation

list(list("dmvt"))

Density of the Multivariate t Distribution with Box-Cox Tranformation

list(list("dmvtmix"))

Density of the Multivariate t Mixture Distribution with Box-Cox Tranformation

list(list("flowClust"))

Robust Model-based Clustering for Flow Cytometry

list(list("hist.flowClust"))

1-D Density Plot (Histogram) of Clustering Results

list(list("Map,flowClust-method"))

Cluster Assignment Based on Clustering Results

list(list("miscellaneous"))

Various Functions for Retrieving Information from Clustering Results

list(list("plot,flowClust-method"))

Scatterplot of Clustering Results

list(list("plot,flowDens-method"))

Contour or Image Plot of Clustering Results

list(list("plot,flowFrame,tmixFilterResult-method"))

Scatterplot / 1-D Density Plot of Filtering (Clustering) Results

list(list("rbox"))

Reverse Box-Cox Transformation

list(list("ruleOutliers,flowClust-method"))

Showing or Modifying the Rule used to Identify Outliers

list(list("show,flowClust-method"))

Show Method for flowClust / tmixFilterResult Object

list(list("show,tmixFilter-method"))

Show Method for tmixFilter Object

list(list("SimulateMixture"))

Random Generation from a t Mixture Model with Box-Cox Transformation

list(list("split,flowClust-method"))

Splitting Data Based on Clustering Results

list(list("Subset,flowClust-method"))

Subsetting Data Based on Clustering Results

list(list("summary,flowClust-method"))

Summary Method for flowClust Object

list(list("tmixFilter"))

Creating Filters and Filtering Flow Cytometry Data

Note

Further information is available in the vignette.

Author(s)

Raphael Gottardo <[e-mail]>, Kenneth Lo <[e-mail]>

Maintainer: Raphael Gottardo <[e-mail]>

References

Lo, K., Brinkman, R. R. and Gottardo, R. (2008) Automated Gating of Flow Cytometry Data via Robust Model-based Clustering. Cytometry A 73, 321-332.

RGLab/flowClust documentation built on Jan. 31, 2024, 11:26 p.m.