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The Classifier View is one of the a special display options option in Aivia that allows you to create and apply custom object classifications on analyzed data. The classifier uses a random forest algorithm to identify unique features (i.e. measurements) for classification.

The Classifier View is accessed by clicking on the Classifier View icon Image Modified on the zoom barzoombar.

Panel

On this page:

Table of Contents

Interface

The Classifier

view button

View button Image Added is located on the zoombar directly above the Image Panel. When the Classifier View is launched, the Display Settings and (Pre-version 12) Analysis Panel will collapse to the right side of the Aivia window. You can click on the vertical separator on the right side of the Aivia window to expand the right panel.

The Classifier

view

View has two sections: the image viewer on the left and the gallery on the right. Controls for the tool

is

are found in the gallery section.

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Classifier

view

View interface

The function for each item in the toolbar is summarized in the table below:

Function	Icon	Description
Classifier		The dropdown menu lets you select a loaded classifier to apply to your data.

Three neuron classifiers are pre-loaded into Aivia for classifying human, rat, and mouse neurons.

Create

new

New Classifier

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This option allows

the user

you to create a new, blank pixel classifier for teaching.
Delete	Image Modified	This option removes the selected classifier from Aivia. This will not delete the selected classifier from its file.
Load	Image Modified	This option allows the user to load a pre-trained classifier (.classifier) from a file into Aivia.
Save	Image Modified	This option allows the user to save the current classifier to a file.
Export

classifier data

Classifier Data to CSV	Image Modified	This option allows the user to export the classifier data (trained objects and measurements) to an Excel-readable comma-separated value (CSV) file.
Reload

classifier

Classifier

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This option reloads the current classifier to its previously

-

saved state, discarding any changes made to the

current

classifier.

Select

measurements

Measurements

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This option

will launch

launches a window that lets you specify the measurements to use in the classifier.

Toggle

multi

Multi-

selection

Selection

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This option turns on the multi-selection cursor, allowing you to select multiple objects by clicking on each object in the gallery separately without holding down the Shift or Ctrl key on your keyboard.

Gallery

The gallery shows a thumbnail of all objects on the image as well as the thumbnails of any objects that are taught during the current session. The gallery separates the thumbnails by classes indicated by a colored header. You can expand/collapse each class separately.

In the collapsed view, a generic icon (on the right) indicates the number of additional thumbnails/objects that are available in the class. Clicking on the generic icon will fully expand the current class and collapse all others.

General usage

Apply a classifier

To apply a classifier, select the classifier to run from the Classifier dropdown menu and click the the Apply button button in the lower-right corner of the gallery. If the data has existing classifications, applying a classifier will remove the existing classifications and create new ones.

On apply, the classifier will look at each object and assign a class. If you have have Color by Class turned turned on in the Display Object Set Settings, the color colors of the objects will change to correspond to its assigned categoryin accordance with their assigned categories.

You can also view the objects by class in the Spreadsheet panel as subsets.

Create a new classifier

Info
You will need to have analysis results, such as outlines and surfaces, to use the Classifier View. You can generate results using one of the recipes or through manual editing. Tracks are currently not supported.

You can create a new classifier from scratch by clicking on the Create New Classifier Image Modified button in the Classifier View toolbar. You will be prompted to enter a name and specify the object type (see right). The general workflow for creating a classifier from scratch is as follows:

Select the object type you wish to analyze using the Classifier View.
Create classes of objects as needed for identifying each phenotype.
Teach the classifier by selecting a few representative objects from each category and adding them to the relevant class gallery; click Teach when you have provided examples from each class.
Update Update the classifier as needed by adding additional object examples.
Select measurements to use or exclude from the classifier.
Apply classifier the classifier to the image.

More information on how to use the Classifier View can be found in the How to classify objects page.

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Versions Compared

Old Version 9

New Version Current

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