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Tracks are objects that are linked over time; track contains information about an object's positions throughout its lifetime. Track objects can be generated by applying one of the tracking recipes available in Aivia. Tracks contains four (4) different types of overlays that can be toggled individually.

This page covers display options that are specific to tracks. General information on displaying object sets can be found in the Object Set Settings page.

Interface

Object groups that are of the track type will appear in the Object group display as shown below:

Select render mode in the View column is available for tracks with 3D objects only

On this page:

Overlay types

There are four (4) display overlays that are associated with a track display:

  • Objects, which can be outlines in 2D or surfaces in 3D
  • Tracks, which indicates the current and previous positions of the tracked object
  • Anchors, which shows the object centroid / location of the object on the current and previous frames
  • Trends, which shows the general heading of a given track from a certain point in time

Each overlay has different settings that can be adjusted and they can each be toggled independently of each other. Below are examples of the different types of track overlays (click on the image to expand):


OverlayObjectsTracksAnchorsTrendsCombined
2D
3D


Object display

Tracks in Aivia are associated with objects that are related in time. Objects can be either outlines (in 2D) or surfaces (in 3D). Objects will be visible only in their respective views depending on whether the dataset is 2D or 3D. Below are examples of the object display (including the track) in 2D and 3D datasets:

Objects in 2DObjects in 3D



Rendering modes

If you have a 3D object that is tracked over time, you can specify the rendering mode for the object surfaces in 3D view by clicking on the icon associated with the selected item in the View column. Clicking on the icon will bring up a list of render mode options that are available for the selected item. There are three options:

Rendering ModeIconDescription
Solid surface

Sets mesh rendering to solid surface mode
Wireframe

Sets mesh rendering to wireframe mode
Points

Sets mesh rendering to point cloud mode


Once selected, the displayed object sets will refresh automatically to reflect the new selection.

Depending on your hardware, the size of the image and the rendering mode chosen, it may take Aivia up to several minutes to fully render the display with the specified settings.

A comparison between the three rendering mode displays are shown below (click on the image to enlarge):


Solid surfaceWireframePoints


Render mode options


Tracks display

Tracks are the line representation of an object's position over time. As you progress to the next time point, a short segment is appended to the display indicating the movement of the objects from its previous position to its new position on the current frame. There are two (2) adjustments that are available for tracks display:

NameIconDescription
Track length

Specifies the number of frames to display on the track overlay, a longer track length may result in reduced performance
Overlay radius

Specifies the width of the track display

You can drag the slider to the left or right to adjust the maximum track length to display. Alternately, you can specify the value by entering a number to the textbox on the right.

When you click on the overlay radius adjustment icon, a small slider pops up underneath the icon. You can use the slider or the textbox to adjust the radius.

Press Enter to confirm the changes and the radius will be updated. It make take a short amount of time depending on the number of tracks that are visible on the image.



Anchors display

Anchors show the position of the tracked object based on its centroid. The anchor display is updated each time when you progress to another time point. There are two (2) adjustments that are available for anchors display:

NameIconDescription
Overlay radius

Specifies the width of the track display
Anchor style

Specifies the display style of the anchor overlay

Same as the tracks display, you can adjust the radius of the anchor circle (2D) or sphere (3D) by clicking on the icon and using the sliders to specify a value.

In the View column, there are two (2) options for anchor displays:

NameIconDescriptionExample (Click to enlarge)

Current

(Default)

Shows anchor only on the current track position

All

Shows all anchors on the displayed portion of the track



Trends display

Trends show the general direction the tracks travel. It is indicated by an arrow pointing from the initial position to the terminal position (depending on trends setting). The trends are updated when you progress to the next time point. There are two (2) adjustments that are available for trends display:


NameIconDescription
Overlay radius

Specifies the width of the track display
Trends style

Specifies the display style of the trends overlay

Same as the tracks display, you can adjust the size and thickness of the trend arrow by clicking on the Overlay radius icon and using the sliders to specify a value.

In the View column, there are three (3) options for trends displays:

NameIconDescriptionExample (Click to enlarge)

Full track

(Default)

Shows the trend from the track's initial position to its terminus position

First to current

Shows the trend from the track's initial position to its current position

Only visible

Shows the trend from the track's position at the earliest displayed time point to its current position



Coloring options

You can specify the coloring mode for each track overlay separately. The coloring options can be specified by clicking on the icon in the Color column in the respective track overlay section. The coloring options for track overlay displays are summarized in the table below:

Coloring ModeObjectsTracksAnchorsTrends
Solid color(tick)

(tick)

(tick)(tick)
Color by label

(tick) (2D)

(error) (3D)

(error)(error)(error)
Color by object type(tick)(tick)(tick)(tick)
Color by name(tick)(tick)(error)(error)
Color by measurement(tick)(tick)(tick)(tick)
Color by class(tick)(tick)(tick)(tick)
Color by cell(error)(error)(error)(error)



Image credits

  • Hernan Garcia, University of California - Berkeley, Berkeley CA
  • Stegmaier J, Mikut R. Fuzzy-based propagation of prior knowledge to improve large-scale image analysis pipelines. PLoS One. 2017 Nov 2; 12(11):e0187535. https://doi.org/10.1371/journal.pone.0187535




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