Files in LocaTT
Geographically-Conscious Taxonomic Assignment for Metabarcoding
MD5
README.md
NAMESPACE
DESCRIPTION
R/blast_version.R
R/softmax.R
R/trim_sequences.R
R/write.fastq.R
R/dmpredict.R
R/normalize.R
R/get_taxonomies.species_binomials.R
R/contains_wildcards.R
R/get_taxonomies.IUCN.R
R/dissimilarity.R
R/ddirmult.R
R/dmWAIC.R
R/detection.R
R/isolate_amplicon.R
R/decode_quality_scores.R
R/filter_sequences.R
R/circle.R
R/reverse_complement.R
R/djsdm.R
R/format_reference_database.R
R/mlWAIC.R
R/mlpredict.R
R/merge_pairs.R
R/dcopula.R
R/singular.proportion.R
R/proportion.R
R/diversity.R
R/adjust_taxonomies.R
R/cor2cov.R
R/read.fastq.R
R/template.R
R/mlreg.R
R/truncate_sequences.probability.R
R/expand_taxonomies.R
R/dmvlogis.R
R/mlcor.R
R/truncate_sequences.length.R
R/truncate_sequences.quality_score.R
R/mlcoef.R
R/sector.R
R/write.fasta.R
R/blast_command_found.R
R/get_consensus_taxonomy.R
R/zzz.R
R/local_taxa_tool.R
R/singular.detection.R
R/dmreg.R
R/mlformat.R
R/binomial_test.R
R/richness.R
R/substitute_wildcards.R
R/read.fasta.R
R/waic.R
R/summarize_quality_scores.R
R/get_taxonomic_level.R
R/coordinates.R
R/truncate_and_merge_pairs.R
inst/CITATION
inst/extdata/example_blast_database.fasta.nto
inst/extdata/example_common_names.csv
inst/extdata/example_blast_database.fasta.nin
inst/extdata/example_blast_database.fasta.ntf
inst/extdata/example_blast_database.fasta.not
inst/extdata/S02P02.fasta
inst/extdata/S02P01.fasta
inst/extdata/S02F.fastq
inst/extdata/S02P03.fasta
inst/extdata/example_regression_data.rds
inst/extdata/example_blast_database.fasta.ndb
inst/extdata/example_query_sequences.fasta
inst/extdata/S03P01.fasta
inst/extdata/S03F.fastq
inst/extdata/example_species_binomials.csv
inst/extdata/S03P02.fasta
inst/extdata/S01R.fastq
inst/extdata/example_query_sequences.fastq
inst/extdata/S01P01.fasta
inst/extdata/example_blast_database.fasta.nhr
inst/extdata/S01P03.fasta
inst/extdata/example_query_sequences.csv
inst/extdata/example_mvlogistic_data.rds
inst/extdata/example_taxonomy.csv
inst/extdata/example_taxonomy_edits.csv
inst/extdata/example_blast_database.fasta.nsq
inst/extdata/example_reference_sequences.fasta
inst/extdata/S02R.fastq
inst/extdata/example_blast_database.fasta
inst/extdata/example_local_taxa_list.csv
inst/extdata/S01P02.fasta
inst/extdata/S01F.fastq
inst/extdata/S03R.fastq
inst/extdata/S03P03.fasta
inst/intdata/dmreg_h4.stan
inst/intdata/dmreg_h0.stan
inst/intdata/dmreg_h2.stan
inst/intdata/ulreg.stan
inst/intdata/mlreg.stan
inst/intdata/dmreg_h3.stan
inst/intdata/dmreg_h1.stan
man/summarize_quality_scores.Rd
man/get_consensus_taxonomy.Rd
man/normalize.Rd
man/blast_command_found.Rd
man/isolate_amplicon.Rd
man/blast_version.Rd
man/mlWAIC.Rd
man/read.fastq.Rd
man/write.fasta.Rd
man/reverse_complement.Rd
man/merge_pairs.Rd
man/waic.Rd
man/read.fasta.Rd
man/filter_sequences.Rd
man/dmWAIC.Rd
man/truncate_sequences.length.Rd
man/softmax.Rd
man/proportion.Rd
man/get_taxonomic_level.Rd
man/truncate_and_merge_pairs.Rd
man/adjust_taxonomies.Rd
man/mlformat.Rd
man/decode_quality_scores.Rd
man/singular.proportion.Rd
man/ddirmult.Rd
man/djsdm.Rd
man/circle.Rd
man/sector.Rd
man/richness.Rd
man/local_taxa_tool.Rd
man/trim_sequences.Rd
man/write.fastq.Rd
man/expand_taxonomies.Rd
man/dcopula.Rd
man/detection.Rd
man/dmpredict.Rd
man/mlreg.Rd
man/dissimilarity.Rd
man/substitute_wildcards.Rd
man/format_reference_database.Rd
man/singular.detection.Rd
man/diversity.Rd
man/cor2cov.Rd
man/dmreg.Rd
man/coordinates.Rd
man/binomial_test.Rd
man/dmvlogis.Rd
man/truncate_sequences.probability.Rd
man/contains_wildcards.Rd
man/truncate_sequences.quality_score.Rd
man/mlpredict.Rd
man/mlcor.Rd
man/template.Rd
man/get_taxonomies.IUCN.Rd
man/mlcoef.Rd
man/get_taxonomies.species_binomials.Rd
