Biome (pmaf.biome)

Processing and analysis of biome data

This package biome is responsible for processing and analysis of data like OTU/ASV Taxonomy, OTU-tables with frequency/count data, Representative sequences of OTUs, Representative phylogenetic tree of OTUs and Sample metadata

Essentials (Classes)

RepTaxonomy(taxonomy[, taxonomy_columns])	An essential class for handling taxonomy data.
RepSequence(sequences, **kwargs)	An essential class for handling feature sequence data.
RepPhylogeny(tree[, feature_ids, prune, …])	An essential class for handling phylogeny data.
FrequencyTable(frequency[, skipcols, allow_nan])	An essential class for handling frequency data.
SampleMetadata(samples[, axis, index_col])	An essential class for handling sample metadata.

Assemblies and Survey (Classes)

BiomeAssembly([essentials, curb, copy])	Assembly class for interconnecting and containing essentials
BiomeSurvey([assembiles, aggfunc, groupby])	Assembly-like Survey class for merging instances of BiomeAssembly