Zooplankton density data

This dataset was derived from NEON data portal with data product ID 'DP1.20219.001'. Details about this data product can be found at https://data.neonscience.org/data-products/DP1.20219.001. Zooplankton are collected from the water column of lakes near NEON sensor infrastructure. The type of sampler used depends on the depth of water at the sampling location. Multiple tows or traps are collected at each location and composited into a single sample. Zooplankton sampling is quantitative and based on the volume of water collected during sampling.

data_zooplankton

Format

A data frame (also a tibble) with the following columns:

  • location_id: Location id (named location).

  • siteID: NEON site code.

  • unique_sample_id: Identity of unique samples (equals sampleID).

  • observation_datetime: Observation date and time.

  • taxon_id: Accepted taxon code.

  • taxon_name: Scientific name associated with the taxon ID.

  • 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: Density (count per liter).

  • unit: Unit of the values in the value column ("count per liter").

  • release: Version of data release by NEON.

  • samplerType: Type of sampler used to collect the sample.

  • towsTrapsVolume: Sample volume (liter) collected for zooplankton.

  • 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.

Details

To clean the data, we:

  1. Deduplicated zoo_fieldData by sampleID using slice(1) to guard against NEON's known aquatic duplicate metadata issue.

  2. Filtered zoo_taxonomyProcessed to sampleCondition == "condition OK" (case-insensitive); summed adjCountPerBottle across size-class measurement records sharing the same sampleID and taxonID. adjCountPerBottle is already corrected for subsampling by the laboratory.

  3. Inner-joined taxonomy to field data (inner join required because towsTrapsVolume is needed to compute density; records without field metadata are dropped).

  4. Density = sum(adjCountPerBottle) / towsTrapsVolume (count per liter), per user guide equation 2.

Note

Details of locations (e.g. latitude/longitude coordinates can be found in neon_location).

Author

Lara Jansen, Stephanie Parker