dataspice-tutorial
September 14, 2018 · View on GitHub
dataspice-tutorial
The goal of dataspice-tutorial is a practical exercise in creating metadata for an example field collected data product using package dataspice.
- Understand basic metadata and why it is important
- Understand where and how to store them
- Understand how they can feed into more complex metadata objects.
dataspice
Package dataspice makes it easier for researchers to create basic, lightweight and concise metadata files for their datasets. Metadata fields are based on schema.org
Data source : NEON data portal
Woody plant vegetation structure
This data product contains the quality-controlled, native sampling resolution data from in-situ measurements of live and standing dead woody individuals and shrub groups, from all terrestrial NEON sites with qualifying woody vegetation. The exact measurements collected per individual depend on growth form, and these measurements are focused on:
- enabling biomass and productivity estimation,
- estimation of shrub volume and biomass
- calibration / validation of multiple NEON airborne remote-sensing data products.
In general, comparatively large individuals that are visible to remote-sensing instruments are mapped, tagged and measured, and other smaller individuals are tagged and measured but not mapped. Smaller individuals may be subsampled according to a nested subplot approach in order to standardize the per plot sampling effort.
Structure and mapping data are reported per individual per plot; sampling metadata, such as per growth form sampling area (m2) or National Land Cover Database Vegetation Type Name (NLCD class) are reported per plot.
For additional details, see protocols:
-
NEON.DP1.10098/NEON.DP1.10045: NEON User Guide to Woody Plant Vegetation Structure (NEON.DP1.10098) and Non- herbaceous Perennial Vegetation Structure (NEON.DP1.10045)
-
NEON.DOC.000987vG: TOS Protocol and Procedure: Measurement of Vegetation Structure, and Science Design
-
NEON.DOC.000914: TOS Science Design for Plant Biomass, Productivity and Leaf Area Index.
dataspice exercise data
The data are a trimmed subset of data downladed from the NEON data portal after filtering for:
-
time periods between
2015-06-2016-06 -
locations within NEON Domain area
D01: Northeast
Filter returned data from 2 sites from 2015-6 to 2015-11.
vst_perplotperyear.csv
Plot level data
| date | siteID | plotID | plotType | nlcdClass | decimalLatitude | decimalLongitude | treesPresent | shrubsPresent | lianasPresent | totalSampledAreaTrees | totalSampledAreaShrubSapling | totalSampledAreaLiana | recordedBy |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 2015-06-06 | BART | BART_042 | tower | deciduousForest | 44.06019 | -71.28805 | NA | NA | NA | 800 | 400 | 800 | wmtulGhdefWiPr5g1VRF0YnRBawgSBx1 |
| 2015-07-16 | BART | BART_047 | tower | deciduousForest | 44.06496 | -71.29087 | NA | NA | NA | 800 | 400 | 800 | XdV86USKkiYZfb6rmwpnK/f2Yah5qnQO |
| 2015-07-21 | BART | BART_047 | tower | deciduousForest | 44.06496 | -71.29087 | NA | NA | NA | 800 | 400 | 800 | XdV86USKkiYZfb6rmwpnK/f2Yah5qnQO |
| 2015-07-22 | BART | BART_034 | tower | mixedForest | 44.06428 | -71.28561 | NA | NA | NA | 800 | 400 | 800 | bWvVSKjgptV89BwHA3h10JNaeV+PHmDU |
| 2015-07-22 | BART | BART_041 | tower | deciduousForest | 44.06534 | -71.28561 | NA | NA | NA | 800 | 400 | 800 | MRgCvwP2WueoGZahvpQXNZ+be1CYdCGm |
| 2015-07-22 | BART | BART_033 | tower | deciduousForest | 44.06320 | -71.28367 | NA | NA | NA | 800 | 100 | 800 | XdV86USKkiYZfb6rmwpnK/f2Yah5qnQO |
vst_mappingandtagging.csv
Individual level data
| date | siteID | plotID | individualID | taxonID | scientificName | recordedBy |
|---|---|---|---|---|---|---|
| 2015-08-04 | BART | BART_051 | NEON.PLA.D01.BART.04140 | TSCA | Tsuga canadensis (L.) Carrière | 6HzkzFDdLaNgPi31AaqxNPsuI5nRHqWu |
| 2015-08-04 | BART | BART_051 | NEON.PLA.D01.BART.03804 | TSCA | Tsuga canadensis (L.) Carrière | 6HzkzFDdLaNgPi31AaqxNPsuI5nRHqWu |
| 2015-07-22 | BART | BART_034 | NEON.PLA.D01.BART.02967 | FAGR | Fagus grandifolia Ehrh. | zODC+zTh3jdHKFo7lDoQcuNYRkWsGu3I |
| 2015-08-26 | BART | BART_036 | NEON.PLA.D01.BART.05106 | FAGR | Fagus grandifolia Ehrh. | zODC+zTh3jdHKFo7lDoQcuNYRkWsGu3I |
| 2015-08-04 | BART | BART_051 | NEON.PLA.D01.BART.04080 | PICEA | Picea sp. | 6HzkzFDdLaNgPi31AaqxNPsuI5nRHqWu |
| 2015-08-04 | BART | BART_039 | NEON.PLA.D01.BART.02904A | TSCA | Tsuga canadensis (L.) Carrière | 0uwWHUCkGoRVT9RpJxngFjI8cZrsFWgn |
Citation
National Ecological Observatory Network. 2018. Data Products: DP1.10098.001. Provisional data downloaded from http://data.neonscience.org on 2018-05-04. Battelle, Boulder, CO, USA
dataspice tutorial is licensed under a Creative Commons Attribution 4.0 International License.