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MIC 1.1.0

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@agerada agerada released this 05 Jun 08:15
  • revamp of the essential_agreement function to allow a more robust, flexible,
    and explicit approach to dealing with censored values. Now, essential_agreement
    (and compare_mic) have tolerate_censoring and tolerate_matched_censoring
    arguments to control how censored values are handled. The default values should
    be appropriate for most situations where the user is comparing an investigational
    method to a gold standard method.
  • compare_mic is faster when only one ab is provided
  • subset S3 method added for mic_validation
  • plot.mic_validation now properly matches dilutions on the lower end of the
    scale
  • droplevels.mic_validation method added that allows unnecessary MIC levels
    in a validation object to be dropped
  • tidy_patric_meta_data was missing MICs when laboratory_typing_method was
    "MIC" (see 81c69f0)
  • pull_patric_genomes now takes an ab argument to only download strains
    where the specified antibiotic was tested
  • kmer counting is now case insensitive
  • compatibility with AMR v3.0