# Microbiome Analysis Plotting and Visualization

## Documentation for package ‘miaViz’ version 1.4.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

miaViz-package | miaViz - Microbiome Analysis Plotting and Visualization
colTreeData | Adding information to tree data in 'TreeSummarizedExperiment'
colTreeData-method | Adding information to tree data in 'TreeSummarizedExperiment'
colTreeData<- | Adding information to tree data in 'TreeSummarizedExperiment'
colTreeData<--method | Adding information to tree data in 'TreeSummarizedExperiment'
col_graph | miaViz example data
combineTreeData | Adding information to tree data in 'TreeSummarizedExperiment'
combineTreeData-method | Adding information to tree data in 'TreeSummarizedExperiment'
mia-datasets | miaViz example data
mia-plot-args | Additional arguments for plotting
plotAbundance | Plotting abundance data
plotAbundance-method | Plotting abundance data
plotAbundanceDensity | Plot abundance density
plotAbundanceDensity-method | Plot abundance density
plotColGraph | Plotting igraph objects with information from a 'SummarizedExperiment'
plotColGraph-method | Plotting igraph objects with information from a 'SummarizedExperiment'
plotColTile | Plot factor data as tiles
plotColTile-method | Plot factor data as tiles
plotColTree | Plotting tree information enriched with information
plotColTree-method | Plotting tree information enriched with information
plotDMN | Plotting Dirichlet-Multinomial Mixture Model data
plotDMNFit | Plotting Dirichlet-Multinomial Mixture Model data
plotDMNFit-method | Plotting Dirichlet-Multinomial Mixture Model data
plotGraph | Plotting igraph objects with information from a 'SummarizedExperiment'
plotPrevalence | Plot prevalence information
plotPrevalence-method | Plot prevalence information
plotPrevalentAbundance | Plot prevalence information
plotPrevalentAbundance-method | Plot prevalence information
plotRowGraph | Plotting igraph objects with information from a 'SummarizedExperiment'
plotRowGraph-method | Plotting igraph objects with information from a 'SummarizedExperiment'
plotRowTile | Plot factor data as tiles
plotRowTile-method | Plot factor data as tiles
plotRowTree | Plotting tree information enriched with information
plotRowTree-method | Plotting tree information enriched with information
plotSeries | Plot Series
plotSeries-method | Plot Series
plotTaxaPrevalence | Plot prevalence information
plotTaxaPrevalence-method | Plot prevalence information
plotTree | Plotting tree information enriched with information
rowTreeData | Adding information to tree data in 'TreeSummarizedExperiment'
rowTreeData-method | Adding information to tree data in 'TreeSummarizedExperiment'
rowTreeData<- | Adding information to tree data in 'TreeSummarizedExperiment'
rowTreeData<--method | Adding information to tree data in 'TreeSummarizedExperiment'
row_graph | miaViz example data
row_graph_order | miaViz example data
treeData | Adding information to tree data in 'TreeSummarizedExperiment'