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flowStats (version 3.30.0)

Statistical methods for the analysis of flow cytometry data

Description

Methods and functionality to analyse flow data that is beyond the basic infrastructure provided by the flowCore package.

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Version

Version

3.30.0

License

Artistic-2.0

Maintainer

Greg Finak

Last Published

February 15th, 2017

Functions in flowStats (3.30.0)

gpaSet

Multi-dimensional normalization of flow cytometry data
autoGate

Automated gating of single populations in 2D
idFeaturesByBackgating

(Internal use only) Identify features of flow cytometry data using backgating
curvPeaks

Parse curv1Filter output
normQA

Normalization quality assessment
plotBins

Plots the probability bins overlaid with flowFrame data
iProcrustes

Procrustes analysis. Using singular value decomposition (SVD) to determine a linear transformation to align the points in X to the points in a reference matrix Y.
curv1Filter-class

Class "curv1Filter"
landmarkMatrix

Compute and cluster high density regions in 1D
rangeGate

Find most likely separation between positive and negative populations in 1D
quadrantGate

Automated quad gating
normalize-methods

normalize a GatingSet imported with flowWorkspace, using sequential normalization on the manual gates in the GatingHierarchy.
singletGate

Creates a singlet polygon gate using the prediction bands from a robust linear model
proBin

Probability binning - a metric for evaluating multivariate differences
calcPBChiSquare

Probability binning metirc for comparing the probability binned datasets
flowStats-package

Statistical methods for flow cytometry data analysis
lymphFilter-class

Automated gating of elliptical cell populations in 2D.
density1d

Find most likely separation between positive and negative populations in 1D
ITN

Sample flow cytometry data
curv2Filter-class

Class "curv2Filter"
binByRef

Bin a test data set using bins previously created by probability binning a control dataset
gaussNorm

Per-channel normalization based on landmark registration
calcPearsonChi

Pearsons chi-square statistic for comparing the probability binned datasets
BackGating

Sample backgating results
warpSet

Normalization based on landmark registration