Mapping my iNaturalist species sightings data

This year, I want to start using my Seek (iNaturalist) app more to help with species identification. I thought it would be fun to map out my observations.

Click the numbers on the map to get pulled into the specific species observations. Each taxon type is indicated by a different symbol:

Plantae
Insecta
Mammalia
Reptilia
Mollusca
Fungi
Aves
Animalia

Click on a singular point to see more information on the observation!

Code

# Specify username and observations URL
username <- "shmuir"
url <- paste0("https://api.inaturalist.org/v1/observations?user_id=", username)

# Make the GET request
response <- GET(url)

# Parse the JSON content
data <- content(response, as = "text", encoding = "UTF-8")
json_data <- fromJSON(data, flatten = TRUE)

# Convert json data to data frame
observations <- as.data.frame(json_data$results)

# Extract latitude and longitude from 'location' column
observations <- observations %>%
  mutate(lat = as.numeric(sapply(strsplit(location, ","), `[`, 1)),
         lng = as.numeric(sapply(strsplit(location, ","), `[`, 2))) %>%
  select(species_guess, observed_on, location, lat, lng, taxon.iconic_taxon_name, taxon.default_photo.square_url, taxon.name, taxon.preferred_common_name) %>%
  mutate(taxon.preferred_common_name = str_to_title(taxon.preferred_common_name))

# Define an awesomeIconList with icons
icoLst <- awesomeIconList(
  Plantae = makeAwesomeIcon(text = fa("seedling"), library = "fa", markerColor = "white"),
  Insecta = makeAwesomeIcon(text = fa("mosquito"), library = "fa", markerColor = "white"),
  Mammalia = makeAwesomeIcon(text = fa("paw"), library = "fa", markerColor = "white"),
  Animalia = makeAwesomeIcon(text = fa("shield-cat"), library = "fa", markerColor = "white"),
  Aves = makeAwesomeIcon(text = fa("crow"), library = "fa", markerColor = "white"),
  Reptilia = makeAwesomeIcon(text = fa("worm"), library = "fa", markerColor = "white"),
  Mollusca = makeAwesomeIcon(text = fa("disease"), library = "fa", markerColor = "white"),
  Fungi = makeAwesomeIcon(text = fa("bacterium"), library = "fa", markerColor = "white"),
  Unknown = makeAwesomeIcon(text = fa("question-circle"), library = "fa", markerColor = "gray")
)

# Create Leaflet map with markers and icons
leaflet(observations) %>%
  addTiles() %>%
  addAwesomeMarkers(
    lng = ~lng, lat = ~lat,
    icon = ~icoLst[taxon.iconic_taxon_name],
    popup = ~paste("Species: ", taxon.preferred_common_name, "<br>",
                   "Scientific Name: ", taxon.name, "<br>",
                   "Date: ", observed_on, "<br>",
                   "Type: ", taxon.iconic_taxon_name, "<br>",
                   "Location: ", location,
                   "<br><img src='", taxon.default_photo.square_url, "' alt='Species Image' style='width:50px;height:50px;'>"),
    clusterOptions = markerClusterOptions()
  ) %>%
  addScaleBar(position = "bottomleft") %>%
  addMiniMap(position = "bottomright", width = 100, height = 100)

Citation

BibTeX citation:

@online{muir2024,
  author = {Muir, Sam},
  title = {Mapping My {iNaturalist} Species Sightings Data},
  date = {2024-08-08},
  url = {https://shmuir.github.io/projects/mapping-species-sightings/},
  langid = {en}
}

For attribution, please cite this work as:

Muir, Sam. 2024. “Mapping My iNaturalist Species Sightings Data.” August 8, 2024. https://shmuir.github.io/projects/mapping-species-sightings/.