2022-08-28 10:31:50 +02:00
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microorganisms <- microorganisms |>
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bind_rows(
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# Toxoplasma
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data.frame(
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mo = "P_TXPL_GOND", # species
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fullname = "Toxoplasma gondii",
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kingdom = "(unknown kingdom)",
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phylum = "Apicomplexa",
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class = "Conoidasida",
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order = "Eucoccidiorida",
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family = "Sarcocystidae",
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genus = "Toxoplasma",
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species = "gondii",
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subspecies = "",
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rank = "species",
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ref = "Nicolle et al., 1908",
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species_id = NA_real_,
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source = "manually added",
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prevalence = 2,
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stringsAsFactors = FALSE
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),
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data.frame(
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mo = "P_TXPL", # genus
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fullname = "Toxoplasma",
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kingdom = "(unknown kingdom)",
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phylum = "Apicomplexa",
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class = "Conoidasida",
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order = "Eucoccidiorida",
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family = "Sarcocystidae",
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genus = "Toxoplasma",
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species = "",
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subspecies = "",
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rank = "genus",
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ref = "Nicolle et al., 1909",
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species_id = NA_real_,
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source = "manually added",
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prevalence = 2,
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stringsAsFactors = FALSE
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),
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data.frame(
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mo = "[FAM]_SRCCYSTD", # family
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fullname = "Sarcocystidae",
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kingdom = "(unknown kingdom)",
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phylum = "Apicomplexa",
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class = "Conoidasida",
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order = "Eucoccidiorida",
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family = "Sarcocystidae",
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genus = "",
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species = "",
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subspecies = "",
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rank = "family",
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ref = "Poche, 1913",
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species_id = NA_real_,
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source = "manually added",
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prevalence = 2,
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stringsAsFactors = FALSE
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),
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data.frame(
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mo = "[ORD]_EUCCCDRD", # order
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fullname = "Eucoccidiorida",
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kingdom = "(unknown kingdom)",
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phylum = "Apicomplexa",
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class = "Conoidasida",
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order = "Eucoccidiorida",
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family = "",
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genus = "",
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species = "",
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subspecies = "",
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rank = "order",
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ref = "Leger et al., 1910",
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species_id = NA_real_,
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source = "manually added",
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prevalence = 2,
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stringsAsFactors = FALSE
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),
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) |>
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2022-06-10 13:15:23 +02:00
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arrange(fullname)
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