Optimal Transport for Gating Transfer in Cytometry Data with Domain Adaptation

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Documentation for package ‘CytOpT’ version 0.9.8

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

barplot_prop	Function to display a bland plot in order to visually assess the agreement between CytOpt estimation of the class proportions and the estimate of the class proportions provided through manual gating.
Bland_Altman	Bland & Altman plot
CytOpT	Function to estimate the type cell proportions in an unclassified cytometry data set denoted X_s by using the classification Lab_source from an other cytometry data set X_s. With this function the computation of the estimate of the class proportions is done with a descent ascent or minmax or two algorithms.
cytopt_desasc_r	Function to estimate the type cell proportions in an unclassified cytometry data set denoted X_s by using the classification Lab_source from an other cytometry data set X_s. With this function the computation of the estimate of the class proportions is done with a descent ascent algorithm.
cytopt_minmax_r	Function to estimate the type cell proportions in an unclassified cytometry data set denoted X_s by using the classification Lab_source from an other cytometry data set X_s. With this function an additional regularization parameter on the class proportions enables a faster computation of the estimator.
HIPC_Stanford	HIPC_Stanford data
HIPC_Stanford_1228_1A	HIPC_Stanford data
HIPC_Stanford_1228_1A_labels	HIPC_Stanford data
HIPC_Stanford_1369_1A	HIPC_Stanford data
HIPC_Stanford_1369_1A_labels	HIPC_Stanford data
KL_plot	Kullback-Leibler divergence plot
Label_Prop_sto_r	Computes a classification on the target data
plot.CytOpt	CytOpt plot
print.CytOpt	CytOpt print
print.summary.CytOpt	CytOpt print summary
summary.CytOpt	CytOpt summary