# Generated by roxygen2: do not edit by hand

export(amplisas2tidy)
export(check_raw_reads)
export(compare_calls)
export(demultiplex)
export(dereplicate)
export(explore_dada)
export(filter_variants)
export(gen_compact2wide)
export(gen_tidy2compact)
export(gen_tidy2genalex)
export(gen_tidy2integers)
export(gen_tidy2wide)
export(gen_wide2structure)
export(genotype)
export(out_popart)
export(reads_loci_samples)
export(reads_track)
export(remove_hemizygotes)
export(remove_monomorphic)
export(remove_poor_fastq)
export(rename_alleles)
export(tidy2sequences)
export(trunc_amp)
export(var_seq2len)
export(variant_call)
import(dplyr)
import(ggplot2)
import(patchwork)
importFrom(Biostrings,DNAString)
importFrom(Biostrings,DNAStringSet)
importFrom(Biostrings,matchPattern)
importFrom(Biostrings,readDNAStringSet)
importFrom(Biostrings,reverseComplement)
importFrom(Biostrings,width)
importFrom(Biostrings,writeXStringSet)
importFrom(DECIPHER,AlignSeqs)
importFrom(DECIPHER,BrowseSeqs)
importFrom(ShortRead,countFastq)
importFrom(dada2,dada)
importFrom(dada2,derepFastq)
importFrom(dada2,filterAndTrim)
importFrom(dada2,getDadaOpt)
importFrom(dada2,learnErrors)
importFrom(dada2,loessErrfun)
importFrom(dada2,makeSequenceTable)
importFrom(dada2,mergePairs)
importFrom(dada2,plotQualityProfile)
importFrom(dada2,removeBimeraDenovo)
importFrom(digest,digest)
importFrom(glue,glue)
importFrom(methods,is)
importFrom(plyr,daply)
importFrom(plyr,ddply)
importFrom(plyr,dlply)
importFrom(plyr,ldply)
importFrom(readr,write_delim)
importFrom(stats,as.dist)
importFrom(stats,cmdscale)
importFrom(stats,loess)
importFrom(stats,predict)
importFrom(stats,reorder)
importFrom(stats,setNames)
importFrom(stringr,str_extract)
importFrom(stringr,str_extract_all)
importFrom(stringr,str_pad)
importFrom(stringr,str_remove)
importFrom(stringr,str_remove_all)
importFrom(stringr,str_split)
importFrom(stringr,str_split_i)
importFrom(stringr,str_which)
importFrom(tibble,as_tibble)
importFrom(tibble,column_to_rownames)
importFrom(tibble,rownames_to_column)
importFrom(tibble,tibble)
importFrom(tidyr,as_tibble)
importFrom(tidyr,drop_na)
importFrom(tidyr,pivot_longer)
importFrom(tidyr,pivot_wider)
importFrom(tidyr,replace_na)
importFrom(tidyr,separate_longer_delim)
importFrom(tidyr,separate_wider_delim)
importFrom(tidyr,unite)
importFrom(tidyselect,all_of)
importFrom(tidyselect,any_of)
importFrom(tidyselect,everything)
importFrom(tidyselect,where)
importFrom(utils,capture.output)
importFrom(utils,combn)
importFrom(utils,read.table)
importFrom(utils,write.table)
importFrom(writexl,write_xlsx)
