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@@ -180,8 +180,9 @@ mo_property(x, property = "fullname", language = get_AMR_locale(),
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- An [integer](https://rdrr.io/r/base/integer.html) in case of
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`mo_year()`
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- An [ordered factor](https://rdrr.io/r/base/factor.html) in case of
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`mo_pathogenicity()`
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- An [ordered
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factor](https://rdatatable.gitlab.io/data.table/reference/fctr.html)
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in case of `mo_pathogenicity()`
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- A [list](https://rdrr.io/r/base/list.html) in case of `mo_taxonomy()`,
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`mo_synonyms()`, `mo_snomed()`, and `mo_info()`
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@@ -238,9 +239,10 @@ Since the top-level of the taxonomy is sometimes referred to as
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Determination of human pathogenicity (`mo_pathogenicity()`) is strongly
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based on Bartlett *et al.* (2022,
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[doi:10.1099/mic.0.001269](https://doi.org/10.1099/mic.0.001269) ). This
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function returns a [factor](https://rdrr.io/r/base/factor.html) with the
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levels *Pathogenic*, *Potentially pathogenic*, *Non-pathogenic*, and
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*Unknown*.
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function returns a
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[factor](https://rdatatable.gitlab.io/data.table/reference/fctr.html)
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with the levels *Pathogenic*, *Potentially pathogenic*,
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*Non-pathogenic*, and *Unknown*.
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Determination of the Gram stain (`mo_gramstain()`) will be based on the
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taxonomic kingdom and phylum. Originally, Cavalier-Smith defined the
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@@ -540,15 +542,15 @@ mo_shortname("Strep agalactiae", Lancefield = TRUE)
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# language support --------------------------------------------------------
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mo_gramstain("Klebsiella pneumoniae", language = "de") # German
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#> [1] "Gramnegativ"
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#> [1] "Gram-negative"
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mo_gramstain("Klebsiella pneumoniae", language = "nl") # Dutch
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#> [1] "Gram-negatief"
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#> [1] "Gram-negative"
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mo_gramstain("Klebsiella pneumoniae", language = "es") # Spanish
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#> [1] "Gram negativo"
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#> [1] "Gram-negative"
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mo_gramstain("Klebsiella pneumoniae", language = "el") # Greek
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#> [1] "Αρνητικό κατά Gram"
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#> [1] "Gram-negative"
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mo_gramstain("Klebsiella pneumoniae", language = "uk") # Ukrainian
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#> [1] "Грамнегативні"
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#> [1] "Gram-negative"
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# mo_type is equal to mo_kingdom, but mo_kingdom will remain untranslated
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mo_kingdom("Klebsiella pneumoniae")
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@@ -558,7 +560,7 @@ mo_type("Klebsiella pneumoniae")
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mo_kingdom("Klebsiella pneumoniae", language = "zh") # Chinese, no effect
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#> [1] "Bacteria"
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mo_type("Klebsiella pneumoniae", language = "zh") # Chinese, translated
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#> [1] "细菌"
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#> [1] "Bacteria"
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mo_fullname("S. pyogenes", Lancefield = TRUE, language = "de")
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#> [1] "Streptococcus Gruppe A"
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