getDetails: Extracts the details matrix from 'CondSEA' or 'PathSEA'...

In gep2pep: Creation and Analysis of Pathway Expression Profiles (PEPs)

Description

Extracts the details matrix from CondSEA or PathSEA output

Usage

getDetails(analysis, collection)

Arguments

analysis	The output of either CondSEA or PathSEA.
collection	One of the names returned by getCollections.

Value

A matrix including the ranks of each pathway (over rows) and each condition (over columns) used as input to CondSEA or PathSEA.

See Also

CondSEA, PathSEA

Examples

db <- loadSamplePWS()
repo_path <- file.path(tempdir(), "gep2pepTemp")

rp <- createRepository(repo_path, db)
geps <- loadSampleGEP()
buildPEPs(rp, geps)

pgset <- c("(+)_chelidonine", "(+/_)_catechin")
psea <- CondSEA(rp, pgset)

getDetails(psea, "c3_TFT")

unlink(repo_path, TRUE)

gep2pep documentation built on Nov. 8, 2020, 5:59 p.m.