Closed peterk87 closed 3 years ago
--min-kmer-frac
kmer_fraction
total_refposition_kmer_frequency
is_kmer_fraction_okay
--max-kmer-freq
$ bump2version major|minor|patch
string.format
check_total_kmers
bio_hansel.parsers._parse_fasta
Bio.SeqIO.FastaIO.SimpleFastaParser
Changes
--min-kmer-frac
for exclusion of low abundance kmers from subtype callingkmer_fraction
,total_refposition_kmer_frequency
,is_kmer_fraction_okay
--max-kmer-freq
for amplicon seq data compatibility$ bump2version major|minor|patch
string.format
with f-string literalscheck_total_kmers
call to right after parsing of CLI argsbio_hansel.parsers._parse_fasta
with BioPython'sBio.SeqIO.FastaIO.SimpleFastaParser
; forcing uppercase of sequence