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 providedsubset
S3 method added for mic_validation
plot.mic_validation
now properly matches dilutions on the lower end of the scaledroplevels.mic_validation
method added that allows unnecessary MIC levels in a validation object to be droppedtidy_patric_meta_data
was missing MICs when laboratory_typing_method
was âMICâ (see 81c69f08)pull_patric_genomes
now takes an ab
argument to only download strains where the specified antibiotic was testedAMR
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