compute_overlap_matrix: Compute overlaping matrix based on given list return by...

In ncats/RaMP-DB: RaMP (Relational Database of Metabolomic Pathways)

Compute overlaping matrix based on given list return by findAnalyteHasPathway()

Description

Compute overlaping matrix based on given list return by findAnalyteHasPathway()

Usage

compute_overlap_matrix(pathwayid, pathwaysWithAnalytes, overlapmethod)

Arguments

pathwayid	a vector that has all ramp pathway id in the pathwaysWithAnalytes
pathwaysWithAnalytes	a list that has pathways ramp Id as name, analytes (ramp compound id only or gene id only or both) as content. Return by findAnalyteHasPathway
overlapmethod	must be in c('balanced','weighted') to determine which way to calculate this matrix

Value

the overlap matrix that has the overlap

ncats/RaMP-DB documentation built on Oct. 28, 2023, 8:12 a.m.