explore_pcxn: Select a single pathway/gene set from one of the four...

Description Usage Arguments Value Examples

View source: R/explore_pcxn.R

Description

Select a single pathway/gene set from one of the four collections ( MSigDB H hallmark gene sets, MSigDB C2 Canonical pathways, MSigDB C5 GO BP gene sets, and Pathprint ) and discover its correlated pathway/gene sets within the same collection.

Usage

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explore_pcxn(collection = "pathprint",
  query_geneset = "Alzheimer's disease (KEGG)", top = 10,
  min_abs_corr = 0.05, max_pval = 0.05)

Arguments

collection

pathways' collection

query_geneset

the single pathway of interest

top

most correlated genesets/pathways

min_abs_corr

minimum absolute correlation

max_pval

maximum p-value

Value

pcxn object

Examples

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## Not run: 
 explore_pcxn("pathprint","Alzheimer's disease (KEGG)", 10,
 0.05, 0.05)

## End(Not run)

hidelab/pcxn.db documentation built on Sept. 7, 2017, 7:19 p.m.