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add kingdom to mo_taxonomy

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dr. M.S. (Matthijs) Berends
2018-12-10 21:47:25 +01:00
parent 5ab7eb07bc
commit 01a6d56334
9 changed files with 12 additions and 8 deletions
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NEWS.md
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@@ -15,6 +15,7 @@
* Function `first_isolate`:
* Will now use a column named like "patid" for the patient ID (parameter `col_patientid`), when this parameter was left blank
* Will now use a column named like "key(...)ab" or "key(...)antibiotics" for the key antibiotics (parameter `col_keyantibiotics`), when this parameter was left blank
* Function `mo_taxonomy` now contains the kingdom too
* Function `first_isolate` will now use a column named like "patid" for the patient ID, when this parameter was left blank
* Reduce false positives for `is.rsi.eligible`
* Summaries of class `mo` will now return the top 3 and the unique count, e.g. using `summary(mo)`