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(v1.4.0.9024) is_new_episode()

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dr. M.S. (Matthijs) Berends
2020-11-17 16:57:41 +01:00
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NEWS.md
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# AMR 1.4.0.9023
# AMR 1.4.0.9024
## <small>Last updated: 17 November 2020</small>
### New
* Function `is_new_episode()` to determine patient episodes which are not necessarily based on microorganisms. It also supports grouped variables with e.g. `mutate()` and `summarise()` of the `dplyr` package:
```r
example_isolates %>%
group_by(hospital_id) %>%
summarise(patients = n_distinct(patient_id),
n_episodes_365 = sum(is_new_episode(episode_days = 365)),
n_episodes_60 = sum(is_new_episode(episode_days = 60)))
```
* Functions `mo_is_gram_negative()` and `mo_is_gram_positive()` as wrappers around `mo_gramstain()`. They always return `TRUE` or `FALSE` (except when the input is `NA` or the MO code is `UNKNOWN`), thus always return `FALSE` for species outside the taxonomic kingdom of Bacteria. If you have the `dplyr` package installed, they can even determine the column with microorganisms themselves when used inside `dplyr` verbs:
```r
example_isolates %>%