pwOmics (version 1.4.0)

plotConsensusGraph: Plot consensus graph(s) from static analysis.

Description

Consensus graph(s) plotted to pdf file stored in current working directory.

Usage

plotConsensusGraph(consensusGraphs, data_omics, ...)

Arguments

consensusGraphs

result from static analysis: consensus graph generated by staticConsensusNet function.

data_omics

OmicsData object.

...

further plotting/legend parameters.

Value

pdf file in current working directory.

Examples

#please run with whole database files (prepared according to vignette)
data(OmicsExampleData)
data_omics = readOmics(tp_prots = c(0.25, 1, 4, 8, 13, 18, 24),
tp_genes = c(1, 4, 8, 13, 18, 24), OmicsExampleData,
PWdatabase = c("biocarta", "kegg", "nci", "reactome"),
TFtargetdatabase = c("chea", "pazar"))
## Not run: 
# data_omics = readTFdata(data_omics)
# data_omics_plus = readPWdata(data_omics,
# loadgenelists = FALSE)
# data_omics = identifyPWs(data_omics_plus)
# data_omics = identifyTFs(data_omics)
# data_omics = enrichPWs(data_omics)
# data_omics = identifyRsofTFs(data_omics, only_enriched = FALSE,
# noTFs_inPW = 1, order_neighbors = 10)
# data_omics = identifyPWTFTGs(data_omics, only_enriched = FALSE)
# statConsNet = staticConsensusNet(data_omics)
# plot(statConsNet)
# ## End(Not run)

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