T3/Oat

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T3/Oat

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- Breeder Tools
- Breeder Home
- Selection Index
- Population Structure
- Clustering
- GWAS
- Accession Usage
- Compare Trials
- Summarize Trials
- Sequence Analysis
- BLAST
Maps
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Trait Search

If you are familiar with the trait names on the original version of T3/Oat, you can use the oat traits lookup table to match the old trait names up with the corresponding breedbase trait name and id.

Select Ontology Name(s):

Search Trait Name:

Search Definition:

Subset Traits:

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Results

Select	Copy Name\|ID	Trait ID	Trait Name	Definition	Trait Usage

Copy Selected Results to a List

Copy the trait names currently selected in the search results table to a new or exisiting list

0 trait(s) selected.

Add New Observation Variable

Intro
Observation Variable
Trait
Method
Scale
Confirm

Need a new observation variable?
- Please be sure the observation variable does not currently exist in the database using the trait search.
- Having many observation variables that are in fact recording the same thing is dangerous and can cause the database data to become fragmented.
- An observation variable is composed of a trait for the attribute being observed, a method describing how the attribute was measured, and a scale indicating the units of the observation.
- Having descriptive observation variables is critical for downstream analysis.
Define your observation variable

An observation variable is composed of a trait for the attribute being observed, a method describing how the attribute was measured, and a scale indicating the units of the observation.

Observation Variable Ontology Name:

New Observation Variable Name:

New Observation Variable Definition:
Define your trait
- A trait defines the attribute being measured. It is one component of an observation variable; the others are a method and a scale.
- Here you can select a trait that already exists in an ontology in the database or you can add a new trait into an ontology.
Trait Ontology Name:

Existing Traits in Selected Ontology:

If the trait does not exist in the ontology you selected above, you can add a new trait into the ontology here.

New Trait Name:

New Trait Definition:
A method defines the how it was measured measured. It is one component of an observation variable; the others are a trait and a scale.

Method Ontology Name:

Existing Methods in Selected Ontology:

If the method does not exist in the ontology you selected above, you can add a new method into the ontology here.

New Method Name:

New Method Definition:
Define your scale

Scale Ontology Name:

Existing Scales in Selected Ontology:

If the scale does not exist in the ontology you selected above, you can add a new scale into the ontology here.

New Scale Name:

New Scale Definition:

New Scale Format:

New Scale Minimum:

New Scale Maximum:

New Scale Categories ('/' separated):

New Scale Default Value:
Confirm you are creating this observation variable in the database

Finished! Your observation variable is now in the database

Add New Ontology

Intro
Ontology

Start a new ontology
- In this workflow you can add a new ontology to the database. Once an ontology is added, you can add terms into it from the add observation variables workflow.
- Ontologies are tagged as being either for traits, methods, or scales
Define your ontology

New Ontology Name:

New Ontology Definition:

New Ontology Database Identifier:

Ontology Type:

Finished! Your ontology is now in the database. Add new terms into it from the add observation variable workflow.

Help

Is the trait you are looking for not here?

Please use the Contact Form to give us information about the trait.

Your Lists

Public Lists

List Contents

List Validation Report: Failed

Elements not found:

Optional: Add Missing Accessions to A List

Mismatched case

Click the Adjust Case button to align the case in the list with what is in the database.

Multiple mismatched case

Items listed here have mulitple case mismatches and must be fixed manually. If accessions need to be merged, contact the database directly.

List elements matching a synonym

Multiple synonym matches

Multiple synonym matches have to be resolved manually. Contact database administrators if necessary.

Fuzzy Search Results

Synonym Search Results

Create a New List from Unique Names:

Available Seedlots

Accessions	Seedlots
Accessions		Breeding Program	Seedlot Name	Contents	Seedlot Location	Count	Weight(g)

Create a New List from Selected Seedlots:

Manage Seedlots

Your Datasets

Public Datasets

Dataset Contents

Dataset Validation Failed

Elements not found:

Your Calendar

Having trouble viewing events on the calendar?
Are you associated with the breeding program you are interested in viewing?

Calendar Permissions

Add New Event

Project:

Event Type:

Start:

End:

Description:

Web URL:

http://www.

Event Info

Attribute	Value
Project Name:
Start Date:
End Date:
Event Type:
Event Description:
Event Web URL:

Edit Event

Project:

Event Type:

Start:

End:

Description:

Web URL:

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Create New User

Notice

Before creating a new account, please check if you already have an account using the directory search.
A link will be emailed to you. Please click on it to activate the account.
All fields are required.

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Breeding Program(s):

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Trait Search

Need a new observation variable?

Define your observation variable

Define your trait

If the trait does not exist in the ontology you selected above, you can add a new trait into the ontology here.

If the method does not exist in the ontology you selected above, you can add a new method into the ontology here.

Define your scale

If the scale does not exist in the ontology you selected above, you can add a new scale into the ontology here.

Confirm you are creating this observation variable in the database

Finished! Your observation variable is now in the database

Finished! Your observation variable is now in the database

Start a new ontology

Define your ontology

Finished! Your ontology is now in the database. Add new terms into it from the add observation variable workflow.

Finished! Your ontology is now in the database. Add new terms into it from the add observation variable workflow.

Is the trait you are looking for not here?

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