compareData: Compare data from the same source but different scale

In huangwb8/GSClassifier: Gene Signature Classifier

Compare data from the same source but different scale

Description

Compare data from the same source but different scale

Usage

compareData(
  X1,
  X2,
  names = c("X1", "X2"),
  width = 10,
  height = 10,
  savePath = "."
)

Arguments

X1	Matrix with sample col and gene row
X2	Matrix with sample col and gene row
names	Label of X1 and X2
width, height	Plot parameters
savePath	Plot saved path

Author(s)

Weibin Huang<[e-mail]>

Examples

## PAD genes
PAD <- readRDS(system.file("extdata", 'PAD.rds', package = "GSClassifier"))
tgene <- as.character(unlist(PAD$geneSet))
X1 <- stad_fpkm[tgene,]
X2 <- stad_tpm[tgene,]

## Compare FPKM with TPM matrix
res <- compareData(X1,X2,
                   names=c('FPKM','TPM'),
                   width = 10,
                   height = 10,
                   savePath = '.')
res2 <- compareData(log2(X1+1),log2(X2+1),
                    names=c('log2FPKM','log2TPM'),
                    width = 10,
                    height = 10,
                    savePath = '.')

huangwb8/GSClassifier documentation built on July 12, 2024, 5:10 p.m.