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(v1.6.0.9000) custom EUCAST rules

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dr. M.S. (Matthijs) Berends
2021-04-07 08:37:42 +02:00
parent 551f99dc8f
commit 7a3139f7cc
49 changed files with 1363 additions and 594 deletions
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15
man/mdro.Rd
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@ -134,10 +134,19 @@ You can print the rules set in the console for an overview. Colours will help re
#> Unmatched rows will return NA.
}
The outcome of the function can be used for the \code{guideline} argument in the \code{\link[=mdro]{mdro()}} function:\preformatted{x <- mdro(example_isolates, guideline = custom)
The outcome of the function can be used for the \code{guideline} argument in the \code{\link[=mdro]{mdro()}} function:\preformatted{x <- mdro(example_isolates,
guideline = custom)
table(x)
#> Elderly Type A Elderly Type B Negative
#> 43 891 1066
#> Negative Elderly Type A Elderly Type B
#> 1070 198 732
}
Rules can also be combined with other custom rules by using \code{\link[=c]{c()}}:\preformatted{x <- mdro(example_isolates,
guideline = c(custom,
custom_mdro_guideline(ERY == "R" & age > 50 ~ "Elderly Type C")))
table(x)
#> Negative Elderly Type A Elderly Type B Elderly Type C
#> 961 198 732 109
}
The rules set (the \code{custom} object in this case) could be exported to a shared file location using \code{\link[=saveRDS]{saveRDS()}} if you collaborate with multiple users. The custom rules set could then be imported using \code{\link[=readRDS]{readRDS()}}.