computePCAForSamples: Project patients onto existing principal component axes (PCA)

In belleau/aicsPaper: Accurate Inference of Genetic Ancestry from Cancer Sequencing

Project patients onto existing principal component axes (PCA)

Description

This function calculates the patient eigenvectors using the specified SNP loadings.

Usage

computePCAForSamples(gds, PATHSAMPLEGDS, listSamples, np = 1L)

Arguments

gds	an object of class SNPRelate::SNPGDSFileClass, a SNP GDS file.
PATHSAMPLEGDS	the path of an object of class gds related to the sample
listSamples	a vector of string representing the samples for which compute the PCA.
np	a single positive integer representing the number of threads. Default: 1L.

Details

More information about the method used to calculate the patient eigenvectors can be found at the Bioconductor SNPRelate website: https://bioconductor.org/packages/SNPRelate/

Value

The integer 0 when successful.

Author(s)

Pascal Belleau, Astrid Deschênes and Alexander Krasnitz

Examples

## TODO
gds <- "TODO"

belleau/aicsPaper documentation built on Aug. 4, 2022, 1:12 a.m.