Microbiome Analysis Plotting and Visualization

[Up] [Top]

Documentation for package ‘miaViz’ version 1.1.4

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'