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2026-06-23 18:00:14 +00:00
parent 9447e0f2c2
commit 2a7bfb9ffb
328 changed files with 5357 additions and 3687 deletions
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reference/random.md
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@@ -8,11 +8,23 @@ reality as much as possible.
## Usage
``` r
random_mic(size = NULL, mo = NULL, ab = NULL, skew = "right",
severity = 1, ...)
random_mic(
size = NULL,
mo = NULL,
ab = NULL,
skew = "right",
severity = 1,
...
)
random_disk(size = NULL, mo = NULL, ab = NULL, skew = "left",
severity = 1, ...)
random_disk(
size = NULL,
mo = NULL,
ab = NULL,
skew = "left",
severity = 1,
...
)
random_sir(size = NULL, prob_SIR = c(0.33, 0.33, 0.33), ...)
```
@@ -88,16 +100,15 @@ the `skew` and `severity` arguments:
``` r
random_mic(25)
#> Class <mic>
#> [1] 0.008 0.125 4 32 1 0.004 0.008 0.0002
#> [9] 0.125 2 0.008 0.008 0.016 0.125 0.064 <=0.0001
#> [17] 0.0005 0.0002 0.5 0.002 0.002 0.25 16 <=0.0001
#> [25] 0.002
#> [1] 1 0.032 0.064 1 0.25 0.125 >=128 0.0002 32 0.25
#> [11] 0.008 0.125 0.001 0.032 8 >=128 0.032 0.008 8 >=128
#> [21] 0.125 0.0001 0.5 64 1
random_disk(25)
#> Class <disk>
#> [1] 25 47 24 47 38 28 36 33 31 50 41 29 40 31 44 45 37 40 44 49 9 48 20 37 47
#> [1] 49 39 29 30 16 23 44 50 25 28 29 14 44 34 8 33 33 34 38 42 10 42 43 11 46
random_sir(25)
#> Class <sir>
#> [1] S S R R S S I S I S S I S R I I I I S I R I I I I
#> [1] I S S S R R S R I I I I S R S I S S S R R I R S I
# add more skewedness, make more realistic by setting a bug and/or drug:
disks <- random_disk(100, severity = 2, mo = "Escherichia coli", ab = "CIP")
@@ -110,28 +121,29 @@ plot(disks, mo = "Escherichia coli", ab = "CIP", guideline = "CLSI 2025")
# \donttest{
random_mic(25, "Klebsiella pneumoniae") # range 0.0625-64
#> Class <mic>
#> [1] 2 0.001 4 0.008 0.0005 0.0005 0.0005 0.0002 0.0002 >=64
#> [11] 0.0002 1 0.5 0.002 0.5 0.002 0.001 0.032 0.008 0.004
#> [21] 0.032 0.0002 0.0005 0.002 0.001
#> [1] 256 <=0.0001 <=0.0001 0.016 1 0.016 2 8
#> [9] 0.5 0.004 0.032 0.004 0.001 0.001 0.064 0.002
#> [17] 0.032 0.004 0.008 16 0.125 <=0.0001 0.001 0.008
#> [25] 0.001
random_mic(25, "Klebsiella pneumoniae", "meropenem") # range 0.0625-16
#> Class <mic>
#> [1] <=0.5 <=0.5 2 <=0.5 1 <=0.5 <=0.5 <=0.5 <=0.5 1 <=0.5 <=0.5
#> [13] <=0.5 1 <=0.5 1 <=0.5 <=0.5 <=0.5 <=0.5 <=0.5 <=0.5 2 1
#> [25] 2
#> [1] 0.5 <=0.25 0.5 4 1 1 0.5 0.5 0.5 <=0.25
#> [11] 0.5 0.5 2 1 <=0.25 <=0.25 8 <=0.25 1 1
#> [21] <=0.25 0.5 16 2 0.5
random_mic(25, "Streptococcus pneumoniae", "meropenem") # range 0.0625-4
#> Class <mic>
#> [1] 0.125 0.125 1 0.25 0.5 0.125 0.125 0.125 0.125 0.125 0.125 0.125
#> [13] 1 0.125 0.5 1 0.125 0.25 0.5 0.25 0.5 0.5 0.5 0.125
#> [25] 0.25
#> [1] 0.125 0.125 0.125 0.125 0.125 >=0.25 0.125 0.125 0.125 0.125
#> [11] >=0.25 0.125 >=0.25 0.125 0.125 0.125 >=0.25 0.125 >=0.25 >=0.25
#> [21] >=0.25 0.125 0.125 0.125 >=0.25
random_disk(25, "Klebsiella pneumoniae") # range 8-50
#> Class <disk>
#> [1] 32 21 23 21 14 22 25 29 29 28 34 34 34 33 13 28 33 34 32 25 18 26 13 21 33
#> [1] 18 32 21 19 23 10 30 18 22 34 19 32 28 18 25 7 27 23 28 17 29 18 22 28 23
random_disk(25, "Klebsiella pneumoniae", "ampicillin") # range 11-17
#> Class <disk>
#> [1] 20 21 15 22 16 22 16 14 21 17 15 19 20 17 18 21 16 20 11 22 19 18 19 11 21
#> [1] 22 18 13 22 17 12 20 20 16 20 22 22 18 20 20 22 22 16 13 17 15 17 16 22 15
random_disk(25, "Streptococcus pneumoniae", "ampicillin") # range 12-27
#> Class <disk>
#> [1] 29 25 31 17 29 21 31 34 33 31 29 30 23 20 33 20 34 32 35 26 26 26 34 30 33
#> [1] 31 30 30 28 24 35 28 34 28 29 27 29 24 21 13 16 34 19 26 20 27 32 32 24 26
# }
```