netplot: plot msea result with network

In afukushima/MSEAp: Metabolite Set Enrichment Analysis (MSEA)

Description

plot msea result with network

Usage

netplot(x, mset, shared.metabolite = 3, show.limit = 20,
  sendto = c("visnetwork", "cytoscape"))

Arguments

x	A msea result
mset	A list of metabolite-sets
shared.metabolite	The number of shared metabolites
show.limit	The number of metabolite-sets to plot
sendto	The target of the network visualization

Value

plot

Examples

library(MSEApdata)
data(kusano)
data(mset_SMPDB_format_KEGG)
res <- msea(mset_SMPDB_format_KEGG, kusano)
netplot(res, mset_SMPDB_format_KEGG, shared.metabolite = 20)
# You can also send the network to Cytoscape with RCy3
# netplot(res, mset_SMPDB_format_KEGG, 
# shared.metabolite = 20, sendto = 'cy')

afukushima/MSEAp documentation built on Sept. 18, 2019, 7:12 p.m.