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2026-03-22 19:55:49 +00:00
parent 3560dfd611
commit c95646d39c
120 changed files with 617 additions and 675 deletions
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12
reference/mean_amr_distance.md
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@@ -84,7 +84,7 @@ suspicious.
``` r
sir <- random_sir(10)
sir
#> Class 'sir'
#> Class <sir>
#> [1] S R S R I I R R R S
mean_amr_distance(sir)
#> [1] -0.9486833 0.9486833 -0.9486833 0.9486833 -0.9486833 -0.9486833
@@ -92,7 +92,7 @@ mean_amr_distance(sir)
mic <- random_mic(10)
mic
#> Class 'mic'
#> Class <mic>
#> [1] 0.5 <=0.0001 0.25 0.0005 0.001 0.0002 8 <=0.0001
#> [9] <=0.0001 0.004
mean_amr_distance(mic)
@@ -105,7 +105,7 @@ mean_amr_distance(mic)
disk <- random_disk(10)
disk
#> Class 'disk'
#> Class <disk>
#> [1] 20 45 31 26 23 38 44 41 20 49
mean_amr_distance(disk)
#> [1] -1.2414143 1.0239402 -0.2446583 -0.6977292 -0.9695717 0.3896410
@@ -180,9 +180,9 @@ if (require("dplyr")) {
mutate(dist = mean_amr_distance(.)) %>%
arrange(mo, dist)
}
#> ℹ Using column 'mo' as input for `mo_genus()` (`?AMR::mo_genus()`)
#> ℹ Using column 'mo' as input for `mo_species()` (`?AMR::mo_species()`)
#> ℹ For `carbapenems()` using columns 'IPM' (imipenem) and 'MEM' (meropenem)
#> ℹ Using column 'mo' as input for `?mo_genus()`
#> ℹ Using column 'mo' as input for `?mo_species()`
#> ℹ For `?carbapenems()` using columns IPM (imipenem) and MEM (meropenem)
#> ℹ Calculating mean AMR distance based on columns "TCY", "IPM", and "MEM"
#> # A tibble: 63 × 5
#> # Groups: mo [4]