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added taxonomic data from ITIS

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dr. M.S. (Matthijs) Berends
2018-09-17 20:53:32 +02:00
parent 7680e4edd8
commit 5d80cef338
13 changed files with 150 additions and 80 deletions
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NEWS.md
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@ -27,7 +27,11 @@
* All old syntaxes will still work with this version, but will throw warnings
* Function `labels_rsi_count` to print datalabels on a RSI `ggplot2` model
* Functions `as.atc` and `is.atc` to transform/look up antibiotic ATC codes as defined by the WHO. The existing function `guess_atc` is now an alias of `as.atc`.
* Aliases for existing function `mo_property`: `mo_family`, `mo_genus`, `mo_species`, `mo_subspecies`, `mo_fullname`, `mo_shortname`, `mo_aerobic`, `mo_type` and `mo_gramstain`. They also come with support for German, Dutch, French, Italian, Spanish and Portuguese, and it defaults to the systems locale:
* Aliases for existing function `mo_property` and new data from ITIS (Integrated Taxonomic Information System, https://www.itis.gov)
* Taxonomic names: `mo_phylum`, `mo_class`, `mo_order`, `mo_family`, `mo_genus`, `mo_species`, `mo_subspecies`
* Semantic names: `mo_fullname`, `mo_shortname`
* Microbial properties: `mo_aerobic`, `mo_type`, `mo_gramstain`.
They also come with support for German, Dutch, French, Italian, Spanish and Portuguese, and it defaults to the systems locale:
```r
mo_gramstain("E. coli")
# [1] "Negative rods"