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flowClust (version 3.10.0)

Clustering for Flow Cytometry

Description

Robust model-based clustering using a t-mixture model with Box-Cox transformation. Note: users should have GSL installed. Windows users: 'consult the README file available in the inst directory of the source distribution for necessary configuration instructions'.

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Version

Version

3.10.0

License

Artistic-2.0

Maintainer

Greg Finak

Last Published

February 15th, 2017

Functions in flowClust (3.10.0)

SimulateMixture

Random Generation from a t Mixture Model with Box-Cox Transformation
density,flowClust-method

Grid of Density Values for the Fitted t Mixture Model with Box-Cox Transformation
hist,flowClust-method

1-D Density Plot (Histogram) of Clustering Results
flowClust-package

Clustering for Flow Cytometry
box

Box-Cox Transformation
dmvt

Density of the Multivariate t Distribution with Box-Cox Tranformation
Map,flowClust-method

Cluster Assignment Based on Clustering Results
flowClust

Robust Model-based Clustering for Flow Cytometry
miscellaneous

Various Functions for Retrieving Information from Clustering Results
dmvtmix

Density of the Multivariate t Mixture Distribution with Box-Cox Tranformation
Subset,flowClust-method

Subsetting Data Based on Clustering Results
mkPrior

Generate a flowClust prior specification
flowClust2Prior

Generate a prior specification based on a flowClust model This function generates a prior specification based on a flowClust fit object It can be passed to a second round of flowClust() with usePrior="yes" The prior could be estimated from a single sample, for example, and then used to speed up the convergence for other samples.
flowClust-internal

Internal flowClust functions
mkPrior-methods

Generate FlowClust prior Specifications
show,tmixFilter-method

Show Method for tmixFilter Object
rbox

Reverse Box-Cox Transformation
split,flowClust-method

Splitting Data Based on Clustering Results
ruleOutliers,flowClust-method

Showing or Modifying the Rule used to Identify Outliers
plot,flowClust-method

Scatterplot of Clustering Results
plot,flowFrame,tmixFilterResult-method

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

Function to match peaks across samples
rituximab

The Rituximab Dataset
plotPrior

Plots a flowClust prior over some data.
show,flowClust-method

Show Method for flowClust / tmixFilterResult Object
plot,flowDens-method

Contour or Image Plot of Clustering Results
summary,flowClust-method

Summary Method for flowClust Object
tmixFilter

Creating Filters and Filtering Flow Cytometry Data