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(v1.6.0.9048) ab selectors overhaul

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dr. M.S. (Matthijs) Berends
2021-05-19 22:55:42 +02:00
parent 6920c0be41
commit 2413efd5c1
32 changed files with 1182 additions and 939 deletions
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150
man/AMR-deprecated.Rd
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@ -6,6 +6,22 @@
\alias{filter_first_weighted_isolate}
\alias{key_antibiotics}
\alias{key_antibiotics_equal}
\alias{filter_ab_class}
\alias{filter_aminoglycosides}
\alias{filter_betalactams}
\alias{filter_carbapenems}
\alias{filter_cephalosporins}
\alias{filter_1st_cephalosporins}
\alias{filter_2nd_cephalosporins}
\alias{filter_3rd_cephalosporins}
\alias{filter_4th_cephalosporins}
\alias{filter_5th_cephalosporins}
\alias{filter_fluoroquinolones}
\alias{filter_glycopeptides}
\alias{filter_macrolides}
\alias{filter_oxazolidinones}
\alias{filter_penicillins}
\alias{filter_tetracyclines}
\title{Deprecated Functions}
\usage{
p_symbol(p, emptychar = " ")
@ -53,9 +69,141 @@ key_antibiotics_equal(
na.rm = TRUE,
...
)
filter_ab_class(
x,
ab_class,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_aminoglycosides(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_betalactams(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_carbapenems(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_cephalosporins(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_1st_cephalosporins(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_2nd_cephalosporins(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_3rd_cephalosporins(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_4th_cephalosporins(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_5th_cephalosporins(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_fluoroquinolones(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_glycopeptides(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_macrolides(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_oxazolidinones(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_penicillins(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
filter_tetracyclines(
x,
result = NULL,
scope = "any",
only_rsi_columns = FALSE,
...
)
}
\description{
These functions are so-called '\link{Deprecated}'. They will be removed in a future release. Using the functions will give a warning with the name of the function it has been replaced by (if there is one).
These functions are so-called '\link{Deprecated}'. \strong{They will be removed in a future release.} Using the functions will give a warning with the name of the function it has been replaced by (if there is one).
}
\details{
All antibiotic class selectors (such as \code{\link[=carbapenems]{carbapenems()}}, \code{\link[=aminoglycosides]{aminoglycosides()}}) can now be used for filtering as well, making all their accompanying \verb{filter_*()} functions redundant (such as \code{\link[=filter_carbapenems]{filter_carbapenems()}}, \code{\link[=filter_aminoglycosides]{filter_aminoglycosides()}}).
}
\section{Retired Lifecycle}{