Welcome to T3/Oat
This is the SANDBOX site for T3/Oat. The Sandbox can be used to test the
addition of new data to T3/Oat. Data added to this site will be periodically cleared and
reset to match the main production version of T3/Oat. For more information on adding data to the
Sandbox and submitting it to the production site, see the submitting data sections below.
T3/Oat is the repository of oat phenotype and genotype data for the Global Oat Genetics
Database, a project initiated in January 2014. For more information see the
Oat Global website. The database was developed at the website
triticeaetoolbox.org/oat. That website was archived in Mar 2020 and all the data was moved to this current site.
Data Usage Policy
The data on this database is shared according to the Toronto agreement.
Click here to view the full data usage policy.
Citation
If data on The Triticeae Toolbox was relevant to analyses or findings that you publish, please cite:
Nicolas Morales, Jean-Luc Jannink, Clay L. Birkett, David J Waring, Lukas A Mueller, et. al., Breedbase: a digital ecosystem for modern plant breeding, G3 Genes|Genomes|Genetics, Volume 12, Issue 7, July 2022, jkac078,
https://doi.org/10.1093/g3journal/jkac078
If you have data to publish in our database, please submit the data using oat-sandbox.
Future Workshops
We're collecing names and emails of those that are interested in attending future T3/Breedbase workshops
on various topics such as using Android Field Book, Seedlots, Barcodes, or any other topic you may be interested
in learning more about. Fill out the Virual Workshop Interest Form
if you may be interested in attending a future workshop. Once we have enough interest in a particular topic, we'll
reach out to everyone to schedule a date.
You are now subscribed to our mailing list ().
Explore T3/Oat
Register
To view most of the data on T3/Oat, you'll first need to create a free account.
Login
If you already have an account, login to get full access.
Use the Quick Search to find an Accession, Trial, Trait, etc by name:
Explore Experiments in the Search Wizard:
You must first log in to view the lists of experiments...
Annual Summary
View tables summarizing the genotype and phenotype data added for each breeding program by calendar year.
Annual Summary Report
To submit phenotype data to T3/Oat follow these three general steps:
Step 1: Create Upload Templates
Data submitted to T3/Oat should be in the format of the upload
template for the data type you are submitting.
View the detailed upload instructions
for specific information on each data type.
Step 2: Add Data to Sandbox
Once you have your upload templates, you can test-load them on this Sandbox site
to check for any errors.
Step 3: Submit Trial Data
If your trial data has been successfully added to the Sandbox you can submit your trials
directly to the production site by clicking the Submit Trial button on
the trial detail page of each trial you want to submit OR you can create a list of multiple
trials to submit and submit them all at once from the Submit Multiple
Trials page.
If your data has not been added to the Sandbox or if you would prefer to submit your files
directly to the production site, you can submit your individual upload templates or data files to us
using the Phenotype Submission Form.
If you have genotype data you would like to submit to T3/Oat, please
use the Genotype Submission Form. This will ask you some questions
about the data and then you can upload a VCF file of the data. We'll make sure the file
is properly formatted, the correct genotype protocol is used for the data, and add the genotype
data to the database.
Genotype Submission Form
New to T3/Oat?
View the comprehensive Documentation from the Breedbase team to learn about
available features or watch the detailed Video Tutorials.
Upload Templates
Blank Upload Templates
Below are blank upload templates for each data type.
Sample Templates
Generate a set of sample templates for new accessions, locations, trials, and trait observations. These templates
contain all new data in properly formatted templates that can be used to practice uploading each data type
to the sandbox.
- Generate your set of sample templates
- Follow the Guided Phenotype Upload Workflow to upload the template for each data type
Example Templates
Below are example templates generated for demo wheat trials from a 2020 workshop.
You can use these files to see how the templates are properly formatted.
For more detailed instructions, see the Detailed Phenotype Upload Instructions
T3/Oat is open source software and available under the MIT License and may be downloaded from GitHub.
T3/Oat Data Usage Policy
In 2009 the Toronto International Data Release Workshop agreed on a policy statement about prepublication data sharing.
Accordingly, the data producers are making many of the datasets in T3/Oat available prior to publication
of a global analysis. Guidelines for appropriate sharing of these data are given in the excerpt from the Toronto Statement.
More information is available on the data usage policy page.
I agree to the Data Usage Policy as specified in Toronto Statement.
