gene_promoter_cors: Get correlations of all promoters to a specific gene

In tanaylab/methylayer: Layered modeling of tumor methylation

Description

Get correlations of all promoters to a specific gene

Usage

gene_promoter_cors(
  gene,
  meth_mat,
  expr_mat,
  promoter_intervs,
  spearman = FALSE
)

Arguments

gene	name of the gene
meth_mat	Matrix with methylation values. Each row is a promoter and each column is a sample. Rownames should contain "chrom", "start" and "end" separated by "_"
expr_mat	Matrix with expression values. Each row is a gene and each column is a sample.
promoter_intervs	intervals set with additional "name" column. In case of duplicate names or coordinates the first one in the matrix will be used. Only intervals that are within promoter_intervs would be used.
spearman	use spearman correlation (if FALSE - use pearson)

Value

dataframe with the following columns:

• genename of the gene

• promotername of the promoter

• (cor)correlation of the gene

tanaylab/methylayer documentation built on Dec. 23, 2021, 7:45 a.m.