v28 Study Germplasm
- Corina Habito
- Rowena Tulod
- 1 About
- 2 Choose Germplasm List
- 3 Actions
- 3.1 Replace Germplasm
- 3.2 Add New Entries
- 3.3 Import Entry Details
- 3.4 Set Entry Type
- 3.4.1 Single entry
- 3.4.2 In batch
- 3.4.3 About checks
- 4 Columns
About
The list of germplasm to be used in the study, and role (or type) of germplasm entries in the context of the study (Test, Check/Control, etc), and entry details are defined in the Germplasm and Checks tab.
Add Germplasm Descriptors
Notice the default list of entry details that will be included in the study. Entry details are list-specific and have been added via v28 Germplasm Lists | Add and Remove Entry Details. Once added, the information can be selected to appear in this section too.
Additional entry details can be selected by clicking the + button.
Select Entry Details from the drop-down list
New Entry detail variables are defined in Ontology Manager (see v28 Manage Ontologies | Add & Edit Variable )
Choose Germplasm List
Click Browse to select the germplasm list for use in the study.
Actions
Click on Actions to reveal options for:
replacing germplasm entries in the study
adding new germplasm entries in the study
importing germplasm entry details relevant to the study
setting germplasm entry types specific to the study
Replace Germplasm
Tick the germplasm for replacement.
Go to Actions, then Replace Germplasm.
Apply filters to find germplasm of interest to use as the replacement. Click Select.
If the experimental design has already been generated, you will need to confirm the replacement.
Add New Entries
Select Add New Entries. Use the germplasm filters to find germplasm of interest to add to the study. Note: If the experimental design has already been generated, the new entry will not appear until the previous design is deleted and the design regenerated.
Import Entry Details
This action allows to add more entry details, if it haven’t been added yet in Germplasm Lists, to be displayed in the studybook.
Download the template. Select additional variable from Entry Details sheet, ex. Entry_code2.
Fill it with values in Observation sheet.
Click Actions > Import Entry Details and browse through the template. The newly added entry detail is shown as another column.
Set Entry Type
By default, all germplasm entries in the study are assigned with type T (“Test entry”), however a set of germplasm may be specified as controls or checks with type C (“Check entry”).
The table below contains the default entry types.
Any additional custom, optional entry types can be defined by a user with Manage Ontologies permission.
Abbreviation of ENTRY_TYPE | Description | Notes |
|---|---|---|
T | Test entry |
|
C | Check entry |
|
X | Non Replicated | For identifying which entries will not be replicated in a P-Rep design |
D | Disease check |
|
S | Stress check |
|
R1 | Replicated entry in family 1 | For identifying the 1st family/group of sister lines; treated as a “Test entry“ for P-Rep design and as “Check entry” for other designs |
R2 | Replicated entry in family 2 | For identifying the 2nd family/group of sister lines; treated as a “Test entry“ for P-Rep design and as “Check entry” for other designs |
R3 | Replicated entry in family 3 | For identifying the 3rd family/group of sister lines; treated as a “Test entry“ for P-Rep design and as “Check entry” for other designs |
If the experimental design has been generated, the Set Entry Type option will not be available from the Actions menu. You must delete the experimental design to change the entry type.
Single entry
Click on the individual cell under ENTRY_TYPE column to change the type of a single entry. Choose the appropriate type from the dropdown list.
In batch
Tick multiple entries that need an entry type change in one go. Click on Actions then select Set Entry Type from the drop-down list.
Select the appropriate Entry Type. Click Accept.
About checks
Experimental design will determine the placement of checks.
Randomized Check Distribution
If you choose a randomized experimental design, checks will be distributed randomly (see Experimental Design).
Randomized Complete Block Design with 25 test entries, 2 checks, 1 environment, and 3 replications.
Uniform Check Distribution (Non-Random)
Non-randomized designs, based on entry list order, allow for the specification of uniform check interval spacing (see Experimental Design).
Entry List Order design with 25 test entries, 2 checks, 1 environment, and 0 replications.
Columns
Click the Columns button to reveal various germplasm descriptors than can be included in the studybook (or fieldbook).
Additional information such as Cross, GroupID, Female & Male Parents, Attributes and Passport details can appear in the studybook whenever such information are available for the germplasm.
Select the necessary descriptors by ticking the corresponding boxes.
Click Apply.
