Instructions
A data package containing leaf-level gas exchange data must include, at a minimum:
- 1.Assemble the data table, using the defined variableNames and variableUnits. If the data is a described data type under this format, then the data table must include the required variables for that data type. Data tables may also include additional variables, and indicators of uncertainty if appropriate.
- 2.Collate the full instrument output files, and assess the quality control level. Note that there is no requirement to edit column headers in full instrument output files to standard variable names.
- 3.Fill in the Methods metadata template, ensuring that required protocols for each data type are described. See our methods metadata guide for descriptions and instructions for each metadata field. Save as csv file type. A separate methods metadata file should be created for each data type included in the data package.
- 4.
- 5.Prepare methods supplements tables to define codes used to capture sample characteristics in the data tables. See our supplement metadata guide for guidance. Save each file as csv file type.
Inclusion of additional related datasets with gas exchange data is encouraged. This can include measurements made inline, such as fluorescence or isotopic measurements, or subsequent analysis of chemical composition or physical properties. Related data should be linked by using common sample identifiers.
Defined variables should be used where available. For variables not yet covered by this reporting format documentation, data contributors should use machine readable variable names that are in common use.
We will continue to work with the ESS community to improve data and metadata reporting formats for leaf-level gas exchange data. Please contribute by submitting issues, using our issue templates, or contact [email protected] to provide any feedback on the process of formatting data, specific metadata fields or controlled vocabulary terms.
The ESS-DIVE collection of reporting formats includes formats for different measurement types and also for file and metadata structures. The collection is designed to be modular, so use of multiple reporting formats will be required to correctly format a data package. As such, the content of this Leaf-level gas exchange data and metadata reporting format is limited to guidance specific to gas exchange data.
For ESS-DIVE data packages, file formats should follow those presented in the csv file and file level metadata reporting format documentation. The ESS-DIVE Reporting Format for Comma-separated Values (CSV) File Structure includes guidance for many general data types, including missing values, temporal and spatial data. Supplementary data should follow the relevant data format, where available, such as the ESS-DIVE Sample ID and Metadata Reporting Format (IGSN-ESS).
Here is an example data package that follows these reporting format guidelines.
Rogers, Alistair, Kim Ely, Shawn Serbin (2019). Leaf Photosynthetic Parameters: Quantum Yield, Convexity, Respiration, Gross CO₂ Assimilation Rate and Raw Gas Exchange Data, Barrow, Alaska, 2016. Next Generation Ecosystem Experiments Arctic Data Collection, Oak Ridge National Laboratory, U.S. Department of Energy, Oak Ridge, Tennessee, USA. doi.org/10.5440/1482338.
Last modified 1yr ago