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To retrieve a scene through a controller in JavaFX, you can use the following steps:

1. First, make sure that you have a reference to the FXMLLoader object that was used to load the FXML file containing the scene and controller. You can do this either by calling the FXMLLoader.load() method and storing the result, or by creating a new FXMLLoader object and calling its load() method.

2. Once you have the FXMLLoader object, call its getController() method to retrieve the controller object associated with the scene. This will return an object of the type specified as the controller in the FXML file (i.e. the class that implements the controller logic).

3. You can then access any public methods or properties of the controller object to manipulate the scene, such as changing the text of a label or adding nodes to a pane.

4. If you need to access the scene object itself, you can do so by calling the getScene() method on any node that is part of the scene hierarchy. For example, if you have a button that is part of the scene, you can call button.getScene() to retrieve the scene object.

5. Once you have the scene object, you can manipulate its properties directly, such as changing its background color or adding event handlers to its nodes.

Here is an example code snippet that demonstrates how to retrieve a scene through a controller in JavaFX:

FXMLLoader loader = new FXMLLoader(getClass().getResource("sample.fxml"));
Parent root = loader.load();
SampleController controller = loader.getController();
Scene scene = root.getScene();

// Access controller methods
controller.setText("Hello World");

// Manipulate scene properties
scene.setFill(Color.LIGHTBLUE);