TERRA-REF Season 4 and 6 Sorghum phenotypes and agronomic metadata in BrAPI format
<p>This data represents a small subset of the TERRA-REF release available on Dryad (LeBauer et al 2020, <a href="https://doi.org/10.5061/dryad.4b8gtht99">https://doi.org/10.5061/dryad.4b8gtht99</a>). In addition to harvested biomass for each cultivar, it includes plot location, planting date, harvest date, fertilizer application, genotype / accession names and metadata, and additional agronomic management metadata for a population of <em>Sorghum bicolor</em> evaluated over two growing seasons. Please refer to the parent dataset for additional information on experimental details.</p> <p>This dataset also contains an archive of software used to translate BrAPI formatted data into ARDN-compliant formats. The code and intermediate files used to demonstrate a run of the crop model DSSAT can be viewed on GitHub <a href="https://github.com/cct-datascience/ardn-terra-ref">https://github.com/cct-datascience/ardn-terra-ref</a>. </p> <p>One way in which the data can be accessed is through a BrAPI-compliant endpoint at terraref.org/brapi. This dataset is a snapshot of the TERRA-REF BrAPI endpoint contents, representing the minimum data and metadata required to run a crop model. These BrAPI-compliant json files were downloaded from terraref.org/brapi. BrAPI is a data format widely used by plant breeders, and is described in Selby et al. 2019, <a href="https://doi.org/10.1093/bioinformatics/btz190">https://doi.org/10.1093/bioinformatics/btz190</a> </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Season 4 Agronomic Management BrAPI format.</p> <p>File Name: events_6000000010.json</p></li><br><li><p>Resource Title: Season 6 Agronomic Management in BrAPI format.</p> <p>File Name: events_6000000034.json</p></li><br><li><p>Resource Title: Season 4 Germplasm in BrAPI format.</p> <p>File Name: germplasm_6000000010.json</p></li><br><li><p>Resource Title: Season 6 Germplasm in BrAPI format.</p> <p>File Name: germplasm_6000000034.json</p></li><br><li><p>Resource Title: Season 4 Phenotypes in BrAPI format.</p> <p>File Name: observations_6000000010.json</p></li><br><li><p>Resource Title: Season 6 Phenotypes in BrAPI format.</p> <p>File Name: observations_6000000034.json</p></li><br><li><p>Resource Title: Season 4 Study Metadata in BrAPI format.</p> <p>File Name: study_6000000010.json</p></li><br><li><p>Resource Title: Season 6 Study Metadata in BrAPI format.</p> <p>File Name: study_6000000034.json</p></li><br><li><p>Resource Title: Season 4 and 6 List of Germplasm.</p> <p>File Name: germplasms_table.csv</p><p>Resource Description: fields:</p> <ul> <li> <p>germplasmDbId: unique identifier in terraref.org/bety database</p> </li> <li> <p>germplasmName: accession number</p> </li> <li> <p>commonCropName: name of the crop </p></li><br><li><p>Resource Title: Season 4 and 6 Phenotypes in CSV format.</p> <p>File Name: obs_table.csv</p><p>Resource Description: Subset of information from the BrAPI Phenotypes file, converted to CSV format for analysis and use in ARDN modeling pipeline. Additional metadata provided in the BrAPI format.</p> </li> <li> <p>studyDbId: Season, either TERRAREF-----S4 or TERRAREF-----S6 to distinguish season 4 and 6</p> </li> <li> <p>observationunitDbId: unique identifier for each record</p> </li> <li> <p>germplasmName: accession identifier</p> </li> <li> <p>observationTimeStamp: date of observation in YYYY-MM-DD format</p> </li> <li> <p>aboveground_dry_biomass: units are kg / ha</p> </li> <li> <p>canopy_height: height of the canopy above ground in cm</p> </li> <li> <p>panicle_count: number of panicles per square meter of plot area </p></li></ul><p></p> </li> </ul>
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| Format: | Dataset biblioteca |
| Published: |
2022
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| Subjects: | Agricultural, veterinary and food sciences, Crop and pasture production, Genetics, Genetics not elsewhere classified, Environmental sciences, Field-based high-throughput phenotyping, biomass yield, ARDN-dev, EARTH SCIENCE > AGRICULTURE > AGRICULTURAL PLANT SCIENCE > PLANT BREEDING AND GENETICS, BrAPI, |
| Online Access: | https://figshare.com/articles/dataset/TERRA-REF_Season_4_and_6_Sorghum_phenotypes_and_agronomic_metadata_in_BrAPI_format/24668244 |
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