Functions for loading, exporting and subsetting the data.
amp_load
Load data for ampvis functions
amp_subset_samples
Subset ampvis2 objects based on sample metadata
amp_subset_taxa
Subset ampvis2 objects based on taxonomy
amp_import_biom
Import OTU table from BIOM file
amp_import_usearch
Import OTU table from USEARCH pipelines
amp_export_fasta
Export raw DNA sequences
amp_export_otutable
Export OTU-table
Functions for visualising amplicon data.
amp_rarecurve
Rarefaction curve
amp_boxplot
Boxplot
amp_heatmap
Heatmap
amp_ordinate
Ordination plot
amp_core
Core community analysis
amp_timeseries
Abundance timeseries
amp_otu_network
Network plot
amp_frequency
Frequency plot
amp_rankabundance
Rank abundance plot
amp_alphadiv
Alpha-diversity analysis
amp_venn
Venn diagram of core OTUs