TERRA-REF Season 4 and 6 Sorghum phenotypes and agronomic metadata in BrAPI format

This data represents a small subset of the TERRA-REF release available on Dryad (LeBauer et al 2020, https://doi.org/10.5061/dryad.4b8gtht99). 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 Sorghum bicolor evaluated over two growing seasons. Please refer to the parent dataset for additional information on experimental details.
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 https://github.com/cct-datascience/ardn-terra-ref.
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, https://doi.org/10.1093/bioinformatics/btz190 Resources in this dataset:Resource Title: Season 4 Agronomic Management BrAPI format. File Name: events_6000000010.jsonResource Title: Season 6 Agronomic Management in BrAPI format. File Name: events_6000000034.jsonResource Title: Season 4 Germplasm in BrAPI format. File Name: germplasm_6000000010.jsonResource Title: Season 6 Germplasm in BrAPI format. File Name: germplasm_6000000034.jsonResource Title: Season 4 Phenotypes in BrAPI format. File Name: observations_6000000010.jsonResource Title: Season 6 Phenotypes in BrAPI format. File Name: observations_6000000034.jsonResource Title: Season 4 Study Metadata in BrAPI format. File Name: study_6000000010.jsonResource Title: Season 6 Study Metadata in BrAPI format. File Name: study_6000000034.jsonResource Title: Season 4 and 6 List of Germplasm. File Name: germplasms_table.csvResource Description: fields:

germplasmDbId: unique identifier in terraref.org/bety database

germplasmName: accession number

commonCropName: name of the crop Resource Title: Season 4 and 6 Phenotypes in CSV format. File Name: obs_table.csvResource 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.

studyDbId: Season, either TERRAREF-----S4 or TERRAREF-----S6 to distinguish season 4 and 6

observationunitDbId: unique identifier for each record

germplasmName: accession identifier

observationTimeStamp: date of observation in YYYY-MM-DD format

aboveground_dry_biomass: units are kg / ha

canopy_height: height of the canopy above ground in cm

panicle_count: number of panicles per square meter of plot area

本数据集代表TERRA-REF发布于Dryad平台（LeBauer等，2020年，https://doi.org/10.5061/dryad.4b8gtht99）的子集。除了包含各品种的收获生物质外，还包括地块位置、种植日期、收获日期、肥料施用、基因型/登录名以及元数据，以及两个生长季节内对高粱（Sorghum bicolor）种群进行的额外农艺管理元数据。有关实验细节的更多信息，请参考主数据集。此外，本数据集还包含将BrAPI格式数据转换为ARDN合规格式的软件存档。用于演示作物模型DSSAT运行的代码和中间文件可在GitHub上查看，链接为https://github.com/cct-datascience/ardn-terra-ref。数据可通过terraref.org/brapi上的BrAPI合规端点获取。该数据集是TERRA-REF BrAPI端点内容的快照，代表了运行作物模型所需的最小数据和元数据。这些BrAPI合规的JSON文件已从terraref.org/brapi下载。BrAPI是一种被植物育种者广泛使用的数据格式，由Selby等人在2019年进行描述，链接为https://doi.org/10.1093/bioinformatics/btz190。本数据集中的资源包括：

资源标题：第4季农艺管理BrAPI格式。文件名：events_6000000010.
资源标题：第6季农艺管理在BrAPI格式中。文件名：events_6000000034.
资源标题：第4季种质在BrAPI格式中。文件名：germplasm_6000000010.
资源标题：第6季种质在BrAPI格式中。文件名：germplasm_6000000034.
资源标题：第4季表型在BrAPI格式中。文件名：observations_6000000010.
资源标题：第6季表型在BrAPI格式中。文件名：observations_6000000034.
资源标题：第4季研究元数据在BrAPI格式中。文件名：study_6000000010.
资源标题：第6季研究元数据在BrAPI格式中。文件名：study_6000000034.
资源标题：第4季和第6季种质列表。文件名：germplasms_table.csv
资源描述：来自BrAPI表型文件的子集信息，已转换为CSV格式以供分析和在ARDN建模管道中使用。提供了额外的BrAPI格式元数据。
研究数据库ID：季节，为TERRAREF-----S4或TERRAREF-----S6，以区分第4季和第6季。
观测单元数据库ID：每条记录的唯一标识符。
种质名称：登录标识符。
观测时间戳：以YYYY-MM-DD格式表示的观测日期。
地上干生物质：单位为kg/ha。
冠层高度：地面以上冠层的高度，单位为cm。
穗数：每平方米地块面积内的穗数。
资源标题：第4季和第6季表型在CSV格式中。文件名：obs_table.csv
资源描述：来自BrAPI表型文件的子集信息，已转换为CSV格式以供分析和在ARDN建模管道中使用。提供了额外的BrAPI格式元数据。