# Generated by roxygen2: do not edit by hand

S3method(coef,binomial_naive_bayes)
S3method(summary,binomial_naive_bayes)
export(cal_fn)
export(cal_fp)
export(cal_met_snp)
export(calculate_mcc)
export(calculate_mcc_multi)
export(calculate_percent)
export(calculate_simpson)
export(calculate_simpson_by_group)
export(calculate_variant_within_group)
export(check_meta_target)
export(check_multistate)
export(check_percent)
export(combine_fastq_search_result)
export(combine_search_string_result)
export(combine_search_string_result_from_files)
export(combine_search_string_result_from_list)
export(estimate_coverage)
export(extend_length)
export(find_optimised_snps)
export(full_merge_1)
export(generate_kmer_search_string)
export(generate_kmers)
export(generate_pattern)
export(generate_prioritisation)
export(generate_snp_search_string)
export(get_all_process_methods)
export(get_metric_fun)
export(get_snps_set)
export(infer_from_combined)
export(iterate_merge)
export(iterate_through)
export(map_profile_to_target)
export(match_count)
export(mcc_calculation)
export(merge_fasta)
export(output_result)
export(output_to_files)
export(parse_group_mcc)
export(parse_group_mcc_multi)
export(predict_balk)
export(process_allele)
export(process_kmer_result)
export(process_result_file)
export(process_snp_result)
export(profile_to_group_result)
export(read_fasta)
export(read_sequences_from_fastq)
export(remove_snp_conflict)
export(resolve_IUPAC_missing)
export(reverse_complement)
export(scramble_sequence)
export(search_from_fastq_reads)
export(search_from_reads)
export(sequence_reads_match_count)
export(summarise_result)
export(train_balk)
export(translate_position)
export(view_mcc)
export(view_mcc_multi)
export(view_percent)
export(view_simpson)
export(write_fasta)
import(data.table)
importFrom(BiocParallel,MulticoreParam)
importFrom(BiocParallel,SerialParam)
importFrom(BiocParallel,bplapply)
importFrom(data.table,.I)
importFrom(data.table,.N)
importFrom(data.table,dcast)
importFrom(data.table,rbindlist)
importFrom(data.table,setDT)
importFrom(stats,na.omit)
importFrom(stats,setNames)
importFrom(utils,head)
importFrom(utils,read.csv)
importFrom(utils,setTxtProgressBar)
importFrom(utils,tail)
importFrom(utils,txtProgressBar)
importFrom(utils,write.csv)
