network_plot: Generate Network Plot
In pmartR/pmartRseq: Analysis and Visualization of 16S Data

Description Usage Arguments Details Value Author(s) Examples

This function generates a network plot for the network data.

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network_plot(netGraph, omicsData = NULL, modData = NULL,
  colour = "Phylum", vsize = FALSE, legend.show = TRUE,
  legend.pos = "bottomleft")

`netGraph`	an object of class 'networkGraph', created by `pmartRseq_igraph`
`omicsData`	Optional, an object of the class 'seqData' usually created by `as.seqData`, if want to colour by taxonomy and/or scale vertices by abundance
`modData`	Optional, an object of class 'modData', created by `detect_modules`, if want to colour by modules.
`colour`	Optional, if desired, can colour vertices by a taxonomic level or 'Module' for module. Use 'NULL' if no colour is desired.
`vsize`	Logical, should vertices be scaled by median abundance of taxa
`legend.show`	Logical, should a legend be shown. Default is TRUE.
`legend.pos`	Optional, if legend==TRUE, where to position the legend. Default is 'bottomleft'.

A network graph is created for the network(s) that were generated.

A network graph.

Allison Thompson

## Not run: 
library(mintJansson)
data(rRNA_data)
mynetwork <- network_calc(omicsData = rRNA_data)
mygraph <- pmartRseq_igraph(netData = mynetwork, coeff=0.6, pval=NULL, qval=0.05)
network_plot(omicsData = rRNA_data, netGraph = mygraph, colour = "Phylum", vsize = TRUE, legend.show = TRUE, legend.pos = "bottomleft")

## End(Not run)