Microbiome Analysis Plotting and Visualization

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Documentation for package ‘miaViz’ version 1.13.2

• 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
miaViz	miaViz - Microbiome Analysis Plotting and Visualization
plotAbundance	Plotting abundance data
plotAbundance-method	Plotting abundance data
plotAbundanceDensity	Plot abundance density
plotAbundanceDensity-method	Plot abundance density
plotCCA	Plot RDA or CCA object
plotCCA-method	Plot RDA or CCA object
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
plotFeaturePrevalence	Plot prevalence information
plotFeaturePrevalence-method	Plot prevalence information
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
plotRDA	Plot RDA or CCA object
plotRDA-method	Plot RDA or CCA object
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'