Man pages for LocaTT
Geographically-Conscious Taxonomic Assignment for Metabarcoding

binomial_testBinomial Test
blast_command_foundCheck BLAST Installation
blast_versionGet BLAST Version
contains_wildcardsCheck Whether DNA Sequences Contain Wildcard Characters
decode_quality_scoresDecode DNA Sequence Quality Scores
format_reference_databaseFormat Reference Databases
get_consensus_taxonomyGet Consensus Taxonomy from Taxonomic Strings
get_taxonomic_levelGet Specified Taxonomic Level from Taxonomic Strings
get_taxonomies.IUCNGet Taxonomies from IUCN Red List Files
get_taxonomies.species_binomialsGet NCBI Taxonomies from Species Binomials
isolate_ampliconTrim DNA Sequences to an Amplicon Region Using Forward and...
local_taxa_toolPerform Geographically-Conscious Taxonomic Assignment
merge_pairsMerge Forward and Reverse DNA Sequence Reads
read.fastaRead FASTA Files
read.fastqRead FASTQ Files
reverse_complementGet the Reverse Complement of a DNA Sequence
substitute_wildcardsSubstitute Wildcard Characters in a DNA Sequence
trim_sequencesTrim Target Nucleotide Sequence from DNA Sequences
truncate_sequences.lengthTruncate DNA Sequences to Specified Length
truncate_sequences.probabilityTruncate DNA Sequences at Specified Probability that All...
truncate_sequences.quality_scoreTruncate DNA Sequences at Specified Quality Score
write.fastaWrite FASTA Files
write.fastqWrite FASTQ Files
LocaTT documentation built on Nov. 2, 2023, 6:09 p.m.