download-obs.RmdObservations within Atlas may be downloaded using the
get_observations functions. To filter our request to the
dataset, we will use the function get_taxa() to obtain
first the Canis Lupus taxa data. We then use it as a filter
to get observations and then display the first 10 records.
library(ratlas)
taxa <- get_taxa(scientific_name = "Canis lupus")
obs <- get_observations(id_taxa = taxa$id_taxa_obs)
head(obs, 10)
#> Simple feature collection with 10 features and 26 fields
#> Geometry type: POINT
#> Dimension: XY
#> Bounding box: xmin: -78.1842 ymin: 45.6703 xmax: -74.1119 ymax: 47.9661
#> Geodetic CRS: +proj=longlat +datum=WGS84
#> id year_obs month_obs day_obs time_obs value within_quebec variable
#> 1 150572996 2011 3 29 <NA> 1 TRUE presence
#> 2 150573004 2011 3 11 <NA> 1 TRUE presence
#> 3 150573006 2011 2 12 <NA> 1 TRUE presence
#> 4 150573007 2011 2 11 <NA> 1 TRUE presence
#> 5 150573008 2011 12 4 <NA> 1 TRUE presence
#> 6 150573009 2011 2 21 <NA> 1 TRUE presence
#> 7 150573010 2011 12 4 <NA> 1 TRUE presence
#> 8 150573012 2011 12 4 <NA> 1 TRUE presence
#> 9 150573013 2011 4 26 <NA> 1 TRUE presence
#> 10 150573014 2011 12 2 <NA> 1 TRUE presence
#> variable_unit id_taxa_obs taxa_observed_scientific_name
#> 1 8420 Canis lupus
#> 2 8420 Canis lupus
#> 3 8420 Canis lupus
#> 4 8420 Canis lupus
#> 5 8420 Canis lupus
#> 6 8420 Canis lupus
#> 7 8420 Canis lupus
#> 8 8420 Canis lupus
#> 9 8420 Canis lupus
#> 10 8420 Canis lupus
#> taxa_valid_scientific_name taxa_vernacular_en taxa_vernacular_fr
#> 1 Canis lupus Gray wolf Loup
#> 2 Canis lupus Gray wolf Loup
#> 3 Canis lupus Gray wolf Loup
#> 4 Canis lupus Gray wolf Loup
#> 5 Canis lupus Gray wolf Loup
#> 6 Canis lupus Gray wolf Loup
#> 7 Canis lupus Gray wolf Loup
#> 8 Canis lupus Gray wolf Loup
#> 9 Canis lupus Gray wolf Loup
#> 10 Canis lupus Gray wolf Loup
#> taxa_group_en taxa_group_fr
#> 1 Mammals Mammifères
#> 2 Mammals Mammifères
#> 3 Mammals Mammifères
#> 4 Mammals Mammifères
#> 5 Mammals Mammifères
#> 6 Mammals Mammifères
#> 7 Mammals Mammifères
#> 8 Mammals Mammifères
#> 9 Mammals Mammifères
#> 10 Mammals Mammifères
#> taxa_vernacular_sources
#> 1 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 2 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 3 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 4 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 5 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 6 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 7 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 8 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 9 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> 10 [ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "fra" }, { "name": "Gray wolf", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key": "102114807", "language": "eng" }, { "name": "Loup", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "fra" }, { "name": "Wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116906893", "language": "eng" }, { "name": "Wolf", "source": "Mammal Species of the World", "source_taxon_key": "100690180", "language": "eng" }, { "name": "Wolf", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "eng" }, { "name": "Loup", "source": "Wikidata", "source_taxon_key": "Q18498", "language": "fra" }, { "name": "Loup", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "fra" }, { "name": "Wolf", "source": "United Kingdom Species Inventory (UKSI)", "source_taxon_key": "180180055", "language": "eng" }, { "name": "Wolf", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "eng" }, { "name": "Grey wolf", "source": "The IUCN Red List of Threatened Species", "source_taxon_key": "176684747", "language": "eng" }, { "name": "Dog", "source": "Checklist Dutch Caribbean Species Register", "source_taxon_key": "181871863", "language": "eng" }, { "name": "Loup", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "fra" }, { "name": "Loup", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "fra" }, { "name": "Grey wolf, wolf", "source": "Belgian Species List", "source_taxon_key": "100484681", "language": "eng" }, { "name": "Gray wolf", "source": "The Paleobiology Database", "source_taxon_key": "121511553", "language": "eng" }, { "name": "Gray wolf", "source": "Phthiraptera.myspecies.info", "source_taxon_key": "116892115", "language": "eng" }, { "name": "Wolf", "source": "Yanayacu Natural History Research Group", "source_taxon_key": "119232422", "language": "eng" }, { "name": "Arctic wolf", "source": "Checklist of Vermont Species", "source_taxon_key": "205802359", "language": "eng" }, { "name": "Arctic wolf", "source": "Canidae", "source_taxon_key": "195656999", "language": "eng" }, { "name": "Arctic wolf", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "eng" }, { "name": "Gray wolf", "source": "Catalogue of Life Checklist", "source_taxon_key": "219030652", "language": "eng" }, { "name": "Loup", "source": "EUNIS Biodiversity Database", "source_taxon_key": "100979480", "language": "fra" }, { "name": "Loup gris", "source": "Canidae", "source_taxon_key": "195656999", "language": "fra" }, { "name": "Loup gris", "source": "Mammals of the World", "source_taxon_key": "212436144", "language": "fra" } ]
#> taxa_reference_sources
#> 1 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 2 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 3 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 4 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 5 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 6 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 7 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 8 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 9 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> 10 [ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "180596" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "GBIF Backbone Taxonomy", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "5219173" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" }, { "source_name": "Catalogue of Life", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon_key": "QLXL" } ]
#> type_sampling type_obs id_datasets
#> 1 <NA> human observation 728
#> 2 <NA> human observation 728
#> 3 <NA> human observation 728
#> 4 <NA> human observation 728
#> 5 <NA> human observation 728
#> 6 <NA> human observation 728
#> 7 <NA> human observation 728
#> 8 <NA> human observation 728
#> 9 <NA> human observation 728
#> 10 <NA> human observation 728
#> dataset source source_record_id
#> 1 Données de localisation des grands mammifères MFFP <NA>
#> 2 Données de localisation des grands mammifères MFFP <NA>
#> 3 Données de localisation des grands mammifères MFFP <NA>
#> 4 Données de localisation des grands mammifères MFFP <NA>
#> 5 Données de localisation des grands mammifères MFFP <NA>
#> 6 Données de localisation des grands mammifères MFFP <NA>
#> 7 Données de localisation des grands mammifères MFFP <NA>
#> 8 Données de localisation des grands mammifères MFFP <NA>
#> 9 Données de localisation des grands mammifères MFFP <NA>
#> 10 Données de localisation des grands mammifères MFFP <NA>
#> source_parent_event source_event geometry
#> 1 <NA> <NA> POINT (-78.1364 47.7067)
#> 2 <NA> <NA> POINT (-78.1842 47.6858)
#> 3 <NA> <NA> POINT (-78.1217 47.6561)
#> 4 <NA> <NA> POINT (-78.1575 47.6561)
#> 5 <NA> <NA> POINT (-77.5789 47.9661)
#> 6 <NA> <NA> POINT (-78.1744 47.6919)
#> 7 <NA> <NA> POINT (-77.5789 47.9661)
#> 8 <NA> <NA> POINT (-77.5789 47.9661)
#> 9 <NA> <NA> POINT (-74.1119 45.6703)
#> 10 <NA> <NA> POINT (-77.7456 47.8189)RAtlas functions expose Atlas data tables and related attributes. The
observations table returned by the get_observations
function already returns informations on the related dataset and
taxonomy of an observations.
# Display first record as a vertical list
print(t(obs[1, ]))
#> 1
#> id 150572996
#> year_obs 2011
#> month_obs 3
#> day_obs 29
#> time_obs "NA"
#> value 1
#> within_quebec TRUE
#> variable "presence"
#> variable_unit ""
#> id_taxa_obs 8420
#> taxa_observed_scientific_name "Canis lupus"
#> taxa_valid_scientific_name "Canis lupus"
#> taxa_vernacular_en "Gray wolf"
#> taxa_vernacular_fr "Loup"
#> taxa_group_en "Mammals"
#> taxa_group_fr "Mammifères"
#> taxa_vernacular_sources "[ { "name": "Loup", "source": "Integrated Taxonomic Information System (ITIS)", "source_taxon_key":" [truncated]
#> taxa_reference_sources "[ { "source_name": "ITIS", "valid_scientific_name": "Canis lupus", "rank": "species", "source_taxon" [truncated]
#> type_sampling "NA"
#> type_obs "human observation"
#> id_datasets 728
#> dataset "Données de localisation des grands mammifères"
#> source "MFFP"
#> source_record_id "NA"
#> source_parent_event "NA"
#> source_event "NA"
#> geometry POINT (-78.1364 47.7067)Any request may be filtered using any data attributes used as a data
column in Atlas. For example, we will filter the
original_source column to get only datasets related to the
Placettes-échantillons permanentes datasets. We will then
use the id values of those datasets to return only
observations with the specified id_datasets
and for the taxa associated to the sugar maple Acer
saccharum.
Different tables can be joined using the base pipe |>
and dplyr functions.
# Get dataset and taxa records for which we will filter observations
pep <- get_datasets(original_source = "Placettes-échantillons permanentes") |>
dplyr::rename_with(~ paste0("ds.", .x))
taxa <- get_taxa(scientific_name = "Acer saccharum") |>
dplyr::rename_with(~ paste0("taxa.", .x))
# Filter observation request through `id_taxa` and `id_datasets` and year values
obs <- get_observations(
id_datasets = pep$ds.id,
id_taxa = taxa$taxa.id_taxa_obs,
year = 2018:2021)
print(glue::glue(
"Found {nrow(obs)} observations between {min(obs$year_obs)} ",
"and {max(obs$year_obs)}")
)
#> Found 1173 observations between 2018 and 2021
# Print map of observations using the package `leaflet`
# install.packages("leaflet")
library(leaflet)
coord <- head(t(sapply(obs$geometry, as.list)), 100) # Only 100 records shown
colnames(coord) <- c("lng", "lat")
map <- leaflet() %>%
addTiles() %>% # Add default OpenStreetMap map tiles
addMarkers(lng = as.numeric(coord[, "lng"]), lat = as.numeric(coord[, "lat"]))
map