getSimilarities: Get similarity metrics

In macintyrelab/CNpare: Comparing tumour copy number profiles

Get similarity metrics

Description

This function get similarity metrics for comparisons

Usage

getSimilarities(dat1, dat2, method = "all", pvalue = FALSE)

Arguments

dat1	matrix with bin-level copy numbers per sample to test
dat2	matrix with bin-level copy numbers per model to compare
method	method to use for testing similarity. Default is all methods.
pvalue	a logical value to indicate if the empirical pvalue is calculated or not

Value

dataframe with similarity metrics for all comparisons

Examples

posBins<-lapply(1,function(chr) getBinsStartsEnds(window=500000, chr, lengthChr[chr]))
ccle_cn<-getCNbins(posBins=posBins, data=cells_segcn, samples=unique(cells_segcn$sample)[1:2])
exp_cell<-as.matrix(ccle_cn[,1])
colnames(exp_cell)<-unique(cells_segcn$sample)[1]
measures<-getSimilarities(dat1=exp_cell,dat2=ccle_cn,method="pearson",pvalue=FALSE)

macintyrelab/CNpare documentation built on April 15, 2022, 4:46 a.m.