Scale: Processing Data.

In bioinfoDZ/RISC: Robust Integration of Single-Cell RNA-Seq Datasets

Processing Data.

Description

After data normalization, RISC will perform root-mean-square scaling to the dataset and generated scaled counts which balance expression levels in each cell with empirical mean equal to 0. Therefore, only biological signal will be reserved in scaled counts. RISC utilizes scaled counts for dimension reduction and data integration.

Usage

scScale(object, method = "scale", center = TRUE, scale = FALSE)

Arguments

object	RISC object: a framework dataset.
method	A model used for scale scdataset, the default is root-mean-square scaling.
center	Whether to center the matrix.
scale	Whether using standard deviation to scale the matrix.

Value

The scaled matrix.

References

Juszczak et al., CiteSeer (2002)

Jiawei et al. (2011)

Examples

# RISC object
obj0 = raw.mat[[3]]
scale.mat = scScale(obj0)

bioinfoDZ/RISC documentation built on March 30, 2024, 9:19 p.m.