spillMat: Access Spillover Matrix

In AlmogAngel/xCell2: A Tool for Generic Cell Type Enrichment Analysis

Access Spillover Matrix

Description

Retrieve or assign the spillover correction matrix for an xCell2Object.

Retrieve or assign the spillover correction matrix for an xCell2Object.

Usage

getSpillMat(object)

setSpillMat(object) <- value

## S4 method for signature 'xCell2Object'
getSpillMat(object)

## S4 replacement method for signature 'xCell2Object'
setSpillMat(object) <- value

Arguments

object	An xCell2Object.
value	A matrix of spillover correction factors (for the setter).

Value

For 'getSpillMat', a matrix of spillover correction factors. For 'setSpillMat<-', the updated xCell2Object.

For 'getSpillMat', a matrix of spillover correction factors. For 'setSpillMat<-', the updated xCell2Object.

See Also

xCell2Object-class

xCell2Object-class

Examples

data(DICE_demo.xCell2Ref, package = "xCell2")
spill_mat <- matrix(c(1, 0.1, 0.1, 1), nrow = 2, byrow = TRUE)
rownames(spill_mat) <- colnames(spill_mat) <- c("T_cells", "B_cells")
setSpillMat(DICE_demo.xCell2Ref) <- spill_mat
getSpillMat(DICE_demo.xCell2Ref)
data(DICE_demo.xCell2Ref, package = "xCell2")
spill_mat <- matrix(c(1, 0.05, 0.05, 1), nrow = 2, byrow = TRUE)
rownames(spill_mat) <- colnames(spill_mat) <- c("T_cells", "B_cells")
setSpillMat(DICE_demo.xCell2Ref) <- spill_mat

AlmogAngel/xCell2 documentation built on Jan. 24, 2025, 10:39 a.m.