generateRef_DEseq2: Generate Reference signature matrix using DEseq2

In IOBR/IOBR: Immune Oncology Biological Research

Generate Reference signature matrix using DEseq2

Description

Generate Reference signature matrix using DEseq2

Usage

generateRef_DEseq2(dds, pheno, FDR = 0.05, dat)

Arguments

dds	raw count data from RNA-seq
pheno	character vector; cell type class of the samples
FDR	numeric; genes with BH adjust p value < FDR are considered significant.
dat	data frame or matrix; normalized transcript quantification data (like FPKM, TPM). Note: cell's median expression level of the identified probes will be the output of reference_matrix.

IOBR/IOBR documentation built on May 5, 2024, 2:34 p.m.