I am trying to understand the default value for min_kmer_matches in fastqtools.py : filter_by_sequence. The default value for min_kmer_matches is 20 whereas the default kmer_size is 10. As far as I follow the code, the maximum number of bases that can match the k-mer can hence also only be 10. Am I missing something, or do the defaults need adjustment? I would appreciate a second opinion. The relevant file is here.
I am trying to understand the default value for
min_kmer_matchesinfastqtools.py : filter_by_sequence. The default value formin_kmer_matchesis 20 whereas the defaultkmer_sizeis 10. As far as I follow the code, the maximum number of bases that can match the k-mer can hence also only be 10. Am I missing something, or do the defaults need adjustment? I would appreciate a second opinion. The relevant file is here.