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reference/as.sir.md
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@@ -606,20 +606,20 @@ example_isolates
#> # IPM <sir>, MEM <sir>, MTR <sir>, CHL <sir>, COL <sir>, MUP <sir>, …
summary(example_isolates[, 1:10]) # see all SIR results at a glance
#> date patient age gender
#> Min. :2002-01-02 Length:2000 Min. : 0.00 Length:2000
#> 1st Qu.:2005-07-31 Class :character 1st Qu.:63.00 Class :character
#> Median :2009-07-31 Mode :character Median :74.00 Mode :character
#> Mean :2009-11-20 Mean :70.69
#> 3rd Qu.:2014-05-30 3rd Qu.:82.00
#> Max. :2017-12-28 Max. :97.00
#> ward mo PEN
#> Length:2000 Class :mo Class:sir
#> Class :character <NA> :0 %S :25.6% (n=417)
#> Mode :character Unique:90 %SDD : 0.0% (n=0)
#> #1 :B_ESCHR_COLI %I : 0.7% (n=11)
#> #2 :B_STPHY_CONS %R :73.7% (n=1201)
#> #3 :B_STPHY_AURS %NI : 0.0% (n=0)
#> date patient age gender
#> Min. :2002-01-02 Length :2000 Min. : 0.00 Length :2000
#> 1st Qu.:2005-07-31 N.unique : 981 1st Qu.:63.00 N.unique : 2
#> Median :2009-07-31 N.blank : 0 Median :74.00 N.blank : 0
#> Mean :2009-11-20 Min.nchar: 6 Mean :70.69 Min.nchar: 1
#> 3rd Qu.:2014-05-30 Max.nchar: 6 3rd Qu.:82.00 Max.nchar: 1
#> Max. :2017-12-28 Max. :97.00
#> ward mo PEN
#> Length :2000 Class :mo Class:sir
#> N.unique : 3 <NA> :0 %S :25.6% (n=417)
#> N.blank : 0 Unique:90 %SDD : 0.0% (n=0)
#> Min.nchar: 3 #1 :B_ESCHR_COLI %I : 0.7% (n=11)
#> Max.nchar: 10 #2 :B_STPHY_CONS %R :73.7% (n=1201)
#> #3 :B_STPHY_AURS %NI : 0.0% (n=0)
#> OXA FLC AMX
#> Class:sir Class:sir Class:sir
#> %S :68.8% (n=251) %S :70.5% (n=665) %S :40.2% (n=543)
@@ -660,10 +660,10 @@ sir_interpretation_history()
#> # A tibble: 4 × 18
#> datetime index method ab_given mo_given host_given input_given
#> <dttm> <int> <chr> <chr> <chr> <chr> <chr>
#> 1 2026-04-24 22:41:17 1 MIC amoxicillin Escherich… human 8
#> 2 2026-04-24 22:41:17 1 MIC cipro Escherich… human 0.256
#> 3 2026-04-24 22:41:18 1 DISK tobra Escherich… human 16
#> 4 2026-04-24 22:41:18 1 DISK genta Escherich… human 18
#> 1 2026-04-25 12:45:43 1 MIC amoxicillin Escherich… human 8
#> 2 2026-04-25 12:45:43 1 MIC cipro Escherich… human 0.256
#> 3 2026-04-25 12:45:44 1 DISK tobra Escherich… human 16
#> 4 2026-04-25 12:45:44 1 DISK genta Escherich… human 18
#> # ℹ 11 more variables: ab <ab>, mo <mo>, host <chr>, input <chr>,
#> # outcome <sir>, notes <chr>, guideline <chr>, ref_table <chr>, uti <lgl>,
#> # breakpoint_S_R <chr>, site <chr>