International Soil Radiocarbon Database v1.0 - Lawrence 2019

[GabrielThrasher]

• URL for data package:
  • https://zenodo.org/records/2613911
• Full citation:
  • Lawrence, C. R., Beem-Miller, J., Hoyt, A. M., Monroe, G., Sierra, C. A., Stoner, S., Heckman, K., Blankinship, J. C., Crow, S. E., McNicol, G., Trumbore, S., Levine, P. A., Vindušková, O., Todd-Brown, K., Rasmussen, C., Hicks Pries, C. E., Schädel, C., McFarlane, K., Doetterl, S., Hatté, C., He, Y., Treat, C., Harden, J. W., Torn, M. S., Estop-Aragonés, C., Asefaw Berhe, A., Keiluweit, M., Della Rosa Kuhnen, Á., Marin-Spiotta, E., Plante, A. F., Thompson, A., Shi, Z., Schimel, J. P., Vaughn, L. J. S., von Fromm, S. F., and Wagai, R.: An open-source database for the synthesis of soil radiocarbon data: International Soil Radiocarbon Database (ISRaD) version 1.0, Earth Syst. Sci. Data, 12, 61–76, https://doi.org/10.5194/essd-12-61-2020, 2020.
• Abstract given to describe the data:
  • Radiocarbon is a critical constraint on our estimates of the timescales of soil carbon cycling that can aid in identifying mechanisms of carbon stabilization and destabilization and improve the forecast of soil carbon response to management or environmental change. Despite the wealth of soil radiocarbon data that have been reported over the past 75 years, the ability to apply these data to global-scale questions is limited by our capacity to synthesize and compare measurements generated using a variety of methods. Here, we present the International Soil Radiocarbon Database (ISRaD; http://soilradiocarbon.org/, last access: 16 December 2019), an open-source archive of soil data that include reported measurements from bulk soils, distinct soil carbon pools isolated in the laboratory by a variety of soil fractionation methods, samples of soil gas or water collected interstitially from within an intact soil profile, CO2 gas isolated from laboratory soil incubations, and fluxes collected in situ from a soil profile. The core of ISRaD is a relational database structured around individual datasets (entries) and organized hierarchically to report soil radiocarbon data, measured at different physical and temporal scales as well as other soil or environmental properties that may also be measured and may assist with interpretation and context. Anyone may contribute their own data to the database by entering it into the ISRaD template and subjecting it to quality assurance protocols. ISRaD can be accessed through (1) a web-based interface, (2) an R package (ISRaD), or (3) direct access to code and data through the GitHub repository, which hosts both code and data. The design of ISRaD allows for participants to become directly involved in the management, design, and application of ISRaD data. The synthesized dataset is available in two forms: the original data as reported by the authors of the datasets and an enhanced dataset that includes ancillary geospatial data calculated within the ISRaD framework. ISRaD also provides data management tools in the ISRaD-R package that provide a starting point for data analysis; as an open-source project, the broader soil community is invited and encouraged to add data, tools, and ideas for improvement. As a whole, ISRaD provides resources to aid our evaluation of soil dynamics across a range of spatial and temporal scales. The ISRaD v1.0 dataset is archived and freely available at https://doi.org/10.5281/zenodo.2613911 (Lawrence et al., 2019).
• Links to any papers associated with the data:
  • Data description paper: https://essd.copernicus.org/articles/12/61/2020/
• How the dataset was found:
  • Conversation with Dr. Kathe Todd-Brown and Dr. Katherine Heckman. Sent by Dr. Heckman.
• Dataset points of contact:
  • Primary/official contact: Corey R. Lawrence from the US Geological Survey, Geosciences and Environmental Change Science Center. Can be reached via email at: clawrence@usgs.gov.
  • Secondary contacts: Dr. Kathe Todd-Brown (kathe.toddbrown@essie.ufl.edu) from the University of Florida and Dr. Katherine Heckman (katherine.a.heckman@usda.gov) from the US Forest Service.
• Data license and intellectual rights:
  • This work is licensed under the Creative Commons Attribution 4.0 International, which allows re-distribution and re-use of a licensed work on the condition that the creator is appropriately credited. Read more about it at: https://creativecommons.org/licenses/by/4.0/legalcode
• Link to corresponding GitHub:
  • https://github.com/International-Soil-Radiocarbon-Database/ISRaD/

[ktoddbrown]

Excellent. We know that ISRaD has layer level SOC variables (and a whole lot more!). These annotations will likely build off of metadata already in ISRaD. When you are ready to tackle this come talk with me for additional instructions.

[ktoddbrown]

I updated the ISRaD annotations 1f1e2201576ee1140d81c1bc3640d9cc1236a0e6 and move the R scripts over to an RMD file instead 13eb4389475193f5840561706c3d1314f0dba808

@Kate-Heckman what I see as next steps are to

• [ ] merge the column annotations (where with_entry == '--') with the table to create a long format; checking column names match annotation file and control vocabulary on the is_type and of_variable to make sure there are no typos
• [ ] add ISRaD metadata to the annotations file including download URL and full citation.
• [ ] move this over this over to a readISRaD function
• [ ] create basic plot and report out on the content of the data in the report
• [ ] send over to ISCN4 branch for soc mapping and merge

Thoughts?

[KateHeckman-USDA]

Kate is clarifying for herself:

1) merge the column annotations (where with_entry == '--') with the table to create a long format; checking column names match annotation file and control vocabulary on the is_type and of_variable to make sure there are no typos With the data Long format = stick transposed data to annotations 2) add ISRaD metadata to the annotations file including download URL and full citation. Look at other read functions - they return data and then annotations - keep them separate

3) move this over this over to a readISRaD function

4) create basic plot and report out on the content of the data in the report Example of "basic plot" in ISCN4 code: https://github.com/ktoddbrown/SoilDRaH/tree/28-iscn4/vignettes/articles

5) send over to ISCN4 branch for soc mapping and merge