KMCP v0.8.0

v0.8.0 - 2022-02-24

• commands:
  • new command utils cov2simi: Convert k-mer coverage to sequence similarity.
  • new command utils query-fpr: Compute the maximal false positive rate of a query.
• compute:
  • update doc.
  • add flags compatibility check.
• search:
  • output the false positive rate of each match, rather than the FPR upper bound of the query.
    this could save some short queries with high similarity.
  • change default values of reads filter, because clinical data contain many short reads.
    • -c/--min-uniq-reads: 30 -> 10.
    • -m/--min-query-len: 70 -> 30.
  • update doc.
• profile:
  • rename flags:
    • --keep-main-matches -> --keep-main-matches.
    • --keep-perfect-match -> --keep-perfect-matches.
  • change default values:
    • --max-qcov-gap: 0.2 -> 0.4.
  • mode 0 (pathogen detection):
    • switch on flag --keep-main-matches
    • use --max-qcov-gap 0.4
  • update doc.