Perform Dimensional Reduction using Canonical Correspondence Analysis (CCA) for TockyPrepData.

Perform Dimensional Reduction using Canonical Correspondence Analysis (CCA) for TockyPrepData.

Usage

TockyCCA(x, variables = NULL, marker_neg_gate = TRUE, select = FALSE)

Arguments

x

A TockyPrepData after running the function Tocky.

variables

Variables (markers) for CCA analysis. If NULL, variables are to be chosed interactively.

marker_neg_gate

Whether autofluorescence values are all considered to be zero or not. This approach is recommended. Perform DefineNegative for the same variables to be used by TockyCCA in advance.

select

Whether to interactively select markers to be processed. If FALSE, all the log-transformed markers apart from Timer fluorescence (stored in the TockyPrepData) will be used.

Value

The slot Reduction will contain CCA results.

Examples

if (FALSE) { # \dontrun{
x <- TockyCCA(x)
} # }