enrichment_score: Enrichment score-based algorithm

In jysonganan/methylDeConv: Computational pipeline for deconvolution of methylation data.

Enrichment score-based algorithm

Description

CBS deconvolution algorithm

Usage

enrichment_score(
  betamatrix,
  ref_betamatrix,
  ref_phenotype,
  method = "MCP-counter",
  pv = 1e-08,
  MaxDMRs = 100
)

Arguments

betamatrix	Beta value matrix of methylation array for mixture samples.
ref_betamatrix	The reference matrix ref_betamatrix.
ref_phenotype	The cell type information for the reference matrix.
method	The enrichment score-based deconvolution algorithm such as "MCP-counter", "ssGSEA" and "ESTIMATE", which are adapted from gene-expression based algorithm. Default value: "MCP-counter".
pv	The p-value threshold with default value as 1e-8
MaxDMRs	The number of probes selected with default value as 100.

Value

The matrix of deconvolution results with rows as mixture samples and columns as cell types.

jysonganan/methylDeConv documentation built on Aug. 8, 2022, 6:25 a.m.