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(v2.1.1.9186) replace antibiotics
with antimicrobials
!
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@ -35,7 +35,7 @@
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#' @param add_ab_group a [logical] to indicate where the group of the antimicrobials must be included as a first column
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#' @param remove_intrinsic_resistant [logical] to indicate that rows and columns with 100% resistance for all tested antimicrobials must be removed from the table
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#' @param FUN the function to call on the `mo` column to transform the microorganism codes - the default is [mo_shortname()]
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#' @param translate_ab a [character] of length 1 containing column names of the [antibiotics] data set
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#' @param translate_ab a [character] of length 1 containing column names of the [antimicrobials] data set
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#' @param include_n_rows a [logical] to indicate if the total number of rows must be included in the output
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#' @param ... arguments passed on to `FUN`
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#' @inheritParams sir_df
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@ -93,7 +93,7 @@ bug_drug_combinations <- function(x,
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unique_mo <- sort(unique(x[, col_mo, drop = TRUE]))
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# select only groups and antibiotics
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# select only groups and antimicrobials
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if (is_null_or_grouped_tbl(x.bak)) {
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data_has_groups <- TRUE
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groups <- get_group_names(x.bak)
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