data_macroinvertebrate.RdThis dataset was derived from NEON data portal with data product ID 'DP1.20120.001'. Details about this data product can be found at https://data.neonscience.org/data-products/DP1.20120.001.
data_macroinvertebrateA data frame (also a tibble) with the following columns:
location_id: Location id.
siteID: NEON site code.
unique_sample_id: Identity of unique samples, usually it has location and date information.
observation_datetime: Observation date and time.
taxon_id: Accepted species code, based on one or more sources.
taxon_name: Scientific name, associated with the taxonID. This is the name
of the lowest level taxonomic rank that can be determined.
taxon_rank: The lowest level taxonomic rank that can be determined for the individual or specimen.
variable_name: The variable name(s) represented by the value column.
value: Value of the variable(s) specified by variable_name.
unit: Unit of the values in the value column.
estimatedTotalCount: Estimated total count.
individualCount: Individual count.
subsamplePercent: Percent of the total sample contained in the subsample.
release: Version of data release by NEON.
benthicArea: Area sampled (square meter).
habitatType: Habitat type sampled.
samplerType: Type of sampler used to collect the sample.
substratumSizeClass: Size class of the substratum sampled.
remarks: Remarks of record.
ponarDepth: Depth (meter) of petite ponar sample.
snagLength: Length (centimeter) of snag sampled.
snagDiameter: Diameter (centimeter) of snag sampled.
latitude: The geographic latitude (in decimal degrees, WGS84) of the geographic center of the reference area.
longitude: The geographic longitude (in decimal degrees, WGS84) of the geographic center of the reference area.
elevation: Elevation (in meters) above sea level.
Here, we:
Removed field samples that had logistical issues (samplingImpractical!="OK")
Removed duplicate records in the field data table
Used count data that were already corrected for subsampling at the external taxonomy lab (estimatedTotalCount)
Summed estimatedTotalCount by scientificName per sampleID in inv_taxonomyProcessed to collapse sizeClass and lifeStage
Calculated density by dividing estimatedTotalCount from the inv_taxonomyProcessed table by benthicArea from the inv_fieldData table to standardize density by area sampled
Details of locations (e.g. latitude/longitude coordinates can be found in neon_location).