Parsing a Data Packet¶

Capalyzer provides a class DataTableFactory to produce datatables, typically as Pandas DataFrames. The class can parse tables for:

Taxonomy
Alpha Diversity
Beta Diversity
Rarefaction Analysis
Average Genome Size
Human Microbiome Project Similarity
Antimicrobial Resistance Genes
Pathways and Functional Profiling
Abundance of Common Macrobial Species
Proportions of Classified Reads

Alpha Diversity¶

The capalyzer supports a number of alpha diversity metrics including:

shannon entropy
richness
chao1 richness

Beta Diversity¶

The capalyzer supports the following beta diversity metrics:

Jensen Shannon Distance
Rho Proportionality