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Select Final Model (Multi-trait)

Use this to select and fit a final QTL model to estimate QTL effects for multi-trait single environment trials. QTLs are selected from a list of candidate QTLs (loci) in multi-trait single environment trials by backward selection.


This specifies which items of output are to be produced by the analysis.

Summary A summary of the QTLs retained in the model
Model Description of the model fitted by the analysis
Variance parameters Estimates of variance parameters
Estimated effects Estimates of QTL (and QTL x E) effects
Wald test Wald tests for all QTL effects in model
Variance-covariance Variance-covariance matrix of the estimated parameters
Monitoring Monitoring output from the mixed model analysis

Run QTL backward selection

When selected backward selection is used to determine a set of QTLs from the candidate QTLs.

Significance level for backward selection

The significance level to use at each step of the backward selection process.


This is for information only detailing that an unstructured variance-covariance model has been used for the selection and fitting of the QTL model. By default this will be set to the model used for the QTL scan.


This specifies whether plots are to be produced by the analysis.

Plot QTL positions on genetic map Plots the significant QTLs on a genetic map.
Bar charts of additive effects Plots two bar charts. The first plots the QTL additive effects for each QTL within each trait. The second plots the QTL additive effects for each trait within the QTLs.


These results can be saved when fitting the final QTL model. After selecting the appropriate boxes, you need to type the names for the identifiers of the data structures into the corresponding In: fields.

Effects Variate Saves the estimated QTL effects.
Standard error of effects Pointer Saves the standard errors of the QTL effects.
QTL positions Pointer Saves the index numbers of the selected QTLs. This option is only enabled when the Run QTL backward selection option is selected.
QTL save structure Pointer Pointer to QTL save structure storing information and results for the significant effects. This structure cannot be displayed in a spreadsheet.

Display in spreadsheet

Select this to display the results in a new spreadsheet window.

Action buttons

Run Select and fit the final QTL model.
Cancel Close the dialog without further changes.
Candidate QTLs Opens a dialog that lets you select or modify the set of candidate QTLs.

Action Icons

Clear Clear all fields and list boxes.
Help Open the Help topic for this dialog.

See also

Updated on April 24, 2019

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