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2026-03-22 19:55:49 +00:00
parent 3560dfd611
commit c95646d39c
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reference/as.mo.md
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@@ -559,7 +559,7 @@ as.mo(c(
"VRSA", # Vancomycin Resistant S. aureus
115329001 # SNOMED CT code
))
#> Class 'mo'
#> Class <mo>
#> [1] B_STPHY_AURS B_STPHY_AURS B_STPHY_AURS B_STPHY_AURS B_STPHY_AURS
#> [6] B_STPHY_AURS B_STPHY_AURS B_STPHY_AURS B_STPHY_AURS B_STPHY_AURS
#> [11] B_STPHY_AURS B_STPHY_AURS
@@ -571,7 +571,7 @@ as.mo(c(
"Ureaplasmium urealytica",
"Ureaplazma urealitycium"
))
#> Class 'mo'
#> Class <mo>
#> [1] B_URPLS_URLY B_URPLS_URLY B_URPLS_URLY B_URPLS_URLY
# input will get cleaned up with the input given in the `cleaning_regex` argument,
@@ -580,21 +580,21 @@ cat(mo_cleaning_regex(), "\n")
#> ([^A-Za-z- \(\)\[\]{}]+|([({]|\[).+([})]|\])|(^| )( ?[a-z-]+[-](resistant|susceptible) ?|e?spp([^a-z]+|$)|e?ssp([^a-z]+|$)|serogr.?up[a-z]*|e?ss([^a-z]+|$)|e?sp([^a-z]+|$)|var([^a-z]+|$)|serovar[a-z]*|sube?species|biovar[a-z]*|e?species|Ig[ADEGM]|e?subsp|biotype|titer|dummy))
as.mo("Streptococcus group A")
#> Class 'mo'
#> Class <mo>
#> [1] B_STRPT_GRPA
as.mo("S. epidermidis") # will remain species: B_STPHY_EPDR
#> Class 'mo'
#> Class <mo>
#> [1] B_STPHY_EPDR
as.mo("S. epidermidis", Becker = TRUE) # will not remain species: B_STPHY_CONS
#> Class 'mo'
#> Class <mo>
#> [1] B_STPHY_CONS
as.mo("S. pyogenes") # will remain species: B_STRPT_PYGN
#> Class 'mo'
#> Class <mo>
#> [1] B_STRPT_PYGN
as.mo("S. pyogenes", Lancefield = TRUE) # will not remain species: B_STRPT_GRPA
#> Class 'mo'
#> Class <mo>
#> [1] B_STRPT_GRPA
# All mo_* functions use as.mo() internally too (see ?mo_property):