Command categories
Sequence alignment commandsChimera detection and filtering
Sequence, tree and graph-based clustering
Distance matrices
Commands for diversity analysis
Commands for reads in FASTQ format
Commands for sequences in FASTx format (FASTA and FASTQ)
Machine learning and finding informative OTUs
Miscellaneous commands
Commands for OTU analysis and denoising
OTU table commands
Next-generation reads
Sequence database search
Taxonomy commands
Tree commands
Labels and annotations
