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fix for printing tibbles, improve guess_bactid

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dr. M.S. (Matthijs) Berends
2018-06-08 12:06:54 +02:00
parent efdf5a3dc5
commit 0a5898b17d
12 changed files with 306 additions and 209 deletions
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man/first_isolate.Rd
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@@ -21,7 +21,7 @@ first_isolate(tbl, col_date, col_patient_id, col_bactid = NA,
\item{col_patient_id}{column name of the unique IDs of the patients}
\item{col_bactid}{column name of the unique IDs of the microorganisms (should occur in the \code{\link{microorganisms}} dataset)}
\item{col_bactid}{column name of the unique IDs of the microorganisms (should occur in the \code{\link{microorganisms}} dataset). Get your bactid's with the function \code{\link{guess_bactid}}, that takes microorganism names as input.}
\item{col_testcode}{column name of the test codes. Use \code{col_testcode = NA} to \strong{not} exclude certain test codes (like test codes for screening). In that case \code{testcodes_exclude} will be ignored. Supports tidyverse-like quotation.}