adjust_taxonomies	adjust_taxonomies
binomial_test	binomial_test
blast_command_found	blast_command_found
blast_version	blast_version
circle	circle
contains_wildcards	contains_wildcards
coordinates	coordinates
cor2cov	cor2cov
dcopula	dcopula
ddirmult	ddirmult
decode_quality_scores	decode_quality_scores
detection	detection
dissimilarity	dissimilarity
diversity	diversity
djsdm	djsdm
dmpredict	dmpredict
dmreg	dmreg
dmvlogis	dmvlogis
dmWAIC	dmWAIC
expand_taxonomies	expand_taxonomies
filter_sequences	filter_sequences
format_reference_database	format_reference_database
get_consensus_taxonomy	get_consensus_taxonomy
get_taxonomic_level	get_taxonomic_level
get_taxonomies.IUCN	get_taxonomies.IUCN
get_taxonomies.species_binomials	get_taxonomies.species_binomials
isolate_amplicon	isolate_amplicon
local_taxa_tool	local_taxa_tool
merge_pairs	merge_pairs
mlcoef	mlcoef
mlcor	mlcor
mlformat	mlformat
mlpredict	mlpredict
mlreg	mlreg
mlWAIC	mlWAIC
normalize	normalize
proportion	proportion
read.fasta	read.fasta
read.fastq	read.fastq
reverse_complement	reverse_complement
richness	richness
sector	sector
singular.detection	singular.detection
singular.proportion	singular.proportion
softmax	softmax
substitute_wildcards	substitute_wildcards
summarize_quality_scores	summarize_quality_scores
template	template
trim_sequences	trim_sequences
truncate_and_merge_pairs	truncate_and_merge_pairs
truncate_sequences.length	truncate_sequences.length
truncate_sequences.probability	truncate_sequences.probability
truncate_sequences.quality_score	truncate_sequences.quality_score
waic	waic
write.fasta	write.fasta
write.fastq	write.fastq
