Find the mammal species that occur in a given departamento of Colombia
sp_by_depto(states, type = c("any", "only", "all"), taxa = NULL)a character vector with one or more departamento names
type of matching to be used. any will return the mammal species that
occur in any of the passed states. only matches mammal species that
occur only in all provided (no more, no less) states and all matches
mammal species that occur at least in all states passed. See examples.
optional character vector to match against the departamentos. Use the order name
a data frame
library (mammalcol)
occ.any <- sp_by_depto(c("Arauca", "Norte de Santander"), type = "any")
occ.only <- sp_by_depto(c("Norte de Santander"), type = "only")
occ.all <- sp_by_depto(c("Arauca", "Norte de Santander"), type = "all")
occ.taxa <- sp_by_depto(c("Arauca", "Norte de Santander"), type = "all", taxa = "Chiroptera")
head(occ.any)
#> scientificName family order
#> 1 Vampyressa voragine Phyllostomidae Chiroptera
#> 2 Odocoileus goudotii Cervidae Artiodactyla
#> 3 Chilomys fumeus Cricetidae Rodentia
#> 4 Melanomys columbianus Cricetidae Rodentia
#> 5 Tonatia maresi Phyllostomidae Chiroptera
#> 6 Coendou pruinosus Erethizontidae Rodentia
#> locality
#> 1 Casanare | Norte de Santander
#> 2 Boyacá | Cundinamarca | Santander | Norte de Santander
#> 3 Norte de Santander
#> 4 Magdalena | Norte de Santander
#> 5 Amazonas | Caquetá | Casanare | Huila | Meta | Putumayo | Vaupés | Guaviare | Arauca | Guainía
#> 6 Cundinamarca | Norte de Santander | Santander | Guainía | Meta | Arauca | Tolima
head(occ.only)
#> scientificName family order locality
#> 1 Chilomys fumeus Cricetidae Rodentia Norte de Santander
head(occ.all)
#> scientificName family order
#> 1 Syntheosciurus granatensis Sciuridae Rodentia
#> 2 Proechimys guairae Echimyidae Rodentia
#> 3 Alouatta seniculus Atelidae Primates
#> 4 Dermanura phaeotis Phyllostomidae Chiroptera
#> 5 Puma concolor Felidae Carnivora
#> 6 Leopardus wiedii Felidae Carnivora
#> locality
#> 1 Caldas | Cauca | Nariño | Quindío | Risaralda | Putumayo | Amazonas | Antioquia | Arauca | Atlántico | Bolívar | Boyacá | Casanare | Cesar | Chocó | Córdoba | Cundinamarca | Guaviare | Huila | La Guajira | Magdalena | Norte de Santander | Santander | Sucre | Tolima | Valle del Cauca | Vichada
#> 2 Arauca | Norte de Santander
#> 3 Bolívar | Caldas | Cauca | Quindío | Risaralda | Valle del Cauca | Amazonas | Caquetá | Guaviare | Guainía | Nariño | Meta | Putumayo | Vichada | Antioquia | Arauca | Atlántico | Casanare | Cesar | Córdoba | La Guajira | Magdalena | Norte de Santander | Sucre | Tolima
#> 4 Antioquia | Cauca | Chocó | Nariño | Quindío | Risaralda | Valle del Cauca | Amazonas | Arauca | Caldas | Caquetá | Córdoba | Guainía | Magdalena | Norte de Santander | Putumayo | Santander | Tolima
#> 5 Antioquia | Arauca | Bolívar | Córdoba | Caldas | Cauca | Caquetá | Casanare | Chocó | Magdalena | Meta | Nariño | Norte de Santander | Putumayo | Quindío | Risaralda | Sucre | Vaupés | Vichada | Amazonas | Guaviare | Atlántico | Cesar | Córdoba | Guainía | Huila | Tolima | Valle del Cauca
#> 6 Cauca | Quindío | Amazonas | Guainía | Meta | Putumayo | Antioquia | Arauca | Atlántico | Bolívar | Caldas | Caquetá | Casanare | Chocó | Córdoba | Cundinamarca | Guaviare | Magdalena | Nariño | Norte de Santander | Tolima | Valle del Cauca | Vichada
head(occ.taxa)
#> scientificName family order
#> 1 Dermanura phaeotis Phyllostomidae Chiroptera
#> 2 Molossus rufus Molossidae Chiroptera
#> 3 Cynomops planirostris Molossidae Chiroptera
#> 4 Vampyressa thyone Phyllostomidae Chiroptera
#> 5 Enchisthenes hartii Phyllostomidae Chiroptera
#> 6 Micronycteris microtis Phyllostomidae Chiroptera
#> locality
#> 1 Antioquia | Cauca | Chocó | Nariño | Quindío | Risaralda | Valle del Cauca | Amazonas | Arauca | Caldas | Caquetá | Córdoba | Guainía | Magdalena | Norte de Santander | Putumayo | Santander | Tolima
#> 2 Arauca | Caldas | Norte de Santander | Tolima | Putumayo | Guaviare | Amazonas | Antioquia | Atlántico | Caquetá | Casanare | Guainía | Meta | Vichada
#> 3 Amazonas | Arauca | Boyacá | Casanare | Meta | Vichada | Caquetá | Cundinamarca | Norte de Santander | Putumayo | Guainía | Sucre
#> 4 Caldas | Cauca | Quindío | Risaralda | Amazonas | Caquetá | Guaviare | Meta | Putumayo | Antioquia | Arauca | Casanare | Chocó | Córdoba | Guainía | Magdalena | Nariño | Norte de Santander | Sucre | Tolima | Valle del Cauca | Vaupés | Vichada
#> 5 Caldas | Cauca | Cundinamarca | Quindío | Risaralda | Amazonas | Caquetá | Putumayo | Antioquia | Arauca | Casanare | Cesar | Chocó | Guainía | Huila | Magdalena | Nariño | Norte de Santander | Putumayo | Tolima | Valle del Cauca
#> 6 Cundinamarca | Magdalena | Amazonas | Caquetá | Guaviare | Arauca | Casanare | Chocó | Córdoba | Guainía | Norte de Santander | Tolima