AS-accessor: Deconvoluted matrix accessors

In CAMTHC: Convex Analysis of Mixtures for Tissue Heterogeneity Characterization

Description

Accessors to proportion matrix and subpopulation-specific expression matrix estimated by CAM.

Usage

Amat(x, ...)

Smat(x, ...)

## S4 method for signature 'CAMObj'
Amat(x, k, usingPCA = TRUE)

## S4 method for signature 'CAMASObj'
Amat(x, usingPCA = TRUE)

## S4 method for signature 'CAMObj'
Smat(x, k, usingPCA = TRUE)

## S4 method for signature 'CAMASObj'
Smat(x, usingPCA = TRUE)

Arguments

x	a CAMObj object or a CAMASObj object.
...	additional argument list.
k	subpopulation number
usingPCA	If TRUE, A matrix is estimated by transforming dimension-reduced A matrix back to original space. Otherwise, A matrix is directly estimated in original data space. The default is TRUE.

Value

Estimated A matrix or S matrix.

Examples

#obtain data
data(ratMix3)
data <- ratMix3$X

rCAM <- CAM(data, K = 3, dim.rdc = 3, thres.low = 0.30, thres.high = 0.95)
Aest <- Amat(rCAM, 3)
Sest <- Smat(rCAM, 3)

Aest <- Amat(slot(rCAM, "ASestResult")[[1]])
Sest <- Smat(slot(rCAM, "ASestResult")[[1]])

CAMTHC documentation built on April 29, 2020, 2:29 a.m.