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(v1.1.0.9009) lose dependencies

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dr. M.S. (Matthijs) Berends
2020-05-18 10:30:53 +02:00
parent 071bdc5a9e
commit bf0402a653
29 changed files with 405 additions and 374 deletions
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7
man/first_isolate.Rd
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@ -98,10 +98,7 @@ To conduct an analysis of antimicrobial resistance, you should only include the
All isolates with a microbial ID of \code{NA} will be excluded as first isolate.
The functions \code{\link[=filter_first_isolate]{filter_first_isolate()}} and \code{\link[=filter_first_weighted_isolate]{filter_first_weighted_isolate()}} are helper functions to quickly filter on first isolates. The function \code{\link[=filter_first_isolate]{filter_first_isolate()}} is essentially equal to:\preformatted{ x \%>\%
mutate(only_firsts = first_isolate(x, ...)) \%>\%
filter(only_firsts == TRUE) \%>\%
select(-only_firsts)
The functions \code{\link[=filter_first_isolate]{filter_first_isolate()}} and \code{\link[=filter_first_weighted_isolate]{filter_first_weighted_isolate()}} are helper functions to quickly filter on first isolates. The function \code{\link[=filter_first_isolate]{filter_first_isolate()}} is essentially equal to one of:\preformatted{ x \%>\% filter(first_isolate(., ...))
}
The function \code{\link[=filter_first_weighted_isolate]{filter_first_weighted_isolate()}} is essentially equal to:\preformatted{ x \%>\%
@ -109,7 +106,7 @@ The function \code{\link[=filter_first_weighted_isolate]{filter_first_weighted_i
mutate(only_weighted_firsts = first_isolate(x,
col_keyantibiotics = "keyab", ...)) \%>\%
filter(only_weighted_firsts == TRUE) \%>\%
select(-only_weighted_firsts)
select(-only_weighted_firsts, -keyab)
}
}
\section{Key antibiotics}{