Resolution-Optimised SNPs Searcher


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Documentation for package ‘minSNPs’ version 0.1.0

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calculate_percent 'calculate_percent'
calculate_simpson 'calculate_simpson'
calculate_variant_within_group 'identify_group_variant_breakdown'
cal_fn 'cal_fn'
cal_fp 'cal_fp'
cal_met_snp 'cal_met_snp'
check_fasta_meta_mapping 'check_fasta_meta_mapping'
check_multistate 'check_multistate'
check_percent 'check_percent'
combine_fastq_search_result 'combine_fastq_search_result'
combine_search_string_result 'combine_search_string_result'
combine_search_string_result_from_files 'combine_search_string_result_from_files'
combine_search_string_result_from_list 'combine_search_string_result_from_list'
estimate_coverage 'estimate_coverage'
extend_length 'extend_length'
find_optimised_snps 'find_optimised_snps'
full_merge 'full_merge'
full_merge_1 'full_merge_1'
generate_kmers 'generate_kmers'
generate_kmer_search_string 'generate_kmer_search_string'
generate_pattern 'generate_pattern'
generate_snp_search_string 'generate_snp_search_string'
get_all_process_methods 'get_all_process_methods'
get_metric_fun 'get_metric_fun'
get_snps_set 'get_snps_set'
identify_overlaps 'identify_overlaps'
infer_from_combined 'infer_from_combined'
iterate_merge 'iterate_merge'
iterate_through 'iterate_through'
match_count 'match_count'
merge_fasta 'merge_fasta'
output_result 'output_result'
output_to_files 'output_to_files'
process_allele 'process_allele'
process_kmer_result 'process_kmer_result'
process_result_file 'process_result_file'
process_snp_result 'process_snp_result'
read_fasta 'read_fasta'
read_sequences_from_fastq 'read_sequences_from_fastq'
remove_snp_conflict 'remove_snp_conflic'
resolve_IUPAC_missing 'resolve_IUPAC_missing'
reverse_complement 'reverse_complement'
search_from_fastq_reads 'search_from_fastq_reads'
sequence_reads_match_count 'sequence_reads_match_count'
view_percent 'view_percent'
view_simpson 'view_simpson'
write_fasta 'write_fasta'