Summary Statistics Between Environments

Select menu: Stats | QTLs (linkage/Association) | Data Exploration | Phenotypic Data | Summary Statistics Multiple Environments

Use this to produce a scatter plot matrix and correlations for trait means in all or a subset of environments. To produce the scatter plot matrix or correlation matrix subsets of data for each selected environment are created. The names of the structures for the subsets of data will be formed automatically using the levels or labels of the environment factor using the ‘_’ character as a prefix.

After you have imported your data, from the menu select
Stats | QTLs (linkage/Association) | Data Exploration | Phenotypic Data | Summary Statistics Multiple Environments.
Fill in the fields as required then click Run.

Available data

This lists data structures appropriate to the current input field. Double-click a name to copy it to the current input field or type the name. If data has been stored in a QTL data space then only the data structures present within that data space will be displayed in the available data, otherwise all the current data within Genstat will be displayed. When data are present within the QTL data space you can right-click on the Available data list to open a shortcut menu where you can change between displaying data only within the data space and all data within Genstat.

Environment factor

A factor specifying the different environments. When the environment factor is selected its levels or labels will be displayed in the Select environments list where you can select the environments for the summary statistics.

Select environments

This displays the levels or labels for the Environment factor where you can select one or more of the environments for the summary statistics. You can select all the items in the list by clicking the Select all button and clear all selection by clicking on the Clear selection button.

Trait means

A variate specifying the trait means to be used in the scatter plot matrix and the calculation of the correlations.

Genotype factor

A factor specifying the genotypes within each environment.

Display

This specifies what summary statistics are displayed.

Correlations	Calculates the correlations between the selected environments.
Scatter plot matrix	Produces a scatter plot matrix between the trait means for the selected environments.

Action buttons

Run	Produce the scatter plot matrix or correlations.
Cancel	Close the dialog without further changes.
Defaults	Reset options to the default settings. Clicking the right mouse on this button produces a shortcut menu where you can choose to set the options using the currently stored defaults or the Genstat default settings.

Action Icons

	Pin	Controls whether to keep the dialog open when you click Run. When the pin is down the dialog will remain open, otherwise when the pin is up the dialog will close.
	Restore	Restore names into edit fields and default settings.
	Clear	Clear all fields and list boxes.
	Help	Open the Help topic for this dialog.