FIBERVIEWER
LIGHT
TUTORIAL
Berger Jean-Baptiste
[Link]@[Link]
1
Index
Getting Started - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
------3
Clustering - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
-----4
Length Method - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
-----5
Gravity, Hausdorff and Mean Methods - - - - - - - - - - - - - - - - - - -
-7
Cluster Selector - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
-----9
Normalized Cut - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
- - - - 11
Saving your VTK File - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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Getting Started
• From GUI :
Select a VTK Input File
Choose the Clustering
Method
• From Command Line :
./FiberViewerLight -i input_name -o
output_name
3
Clustering
4
Length Method
• Fiber extremities is
Threshold default values
• Bars option is the number
of bars that will be used
on the histogram if none
of the fibers were
thresholded
• Click on Apply Threshold
to display the thresholded
fiber
• Click Next or Undo to go
back to the main screen,
Next will keep changes
5
Length Method
• Colors go from blue
(shortest) to red (longest)
6
Gravity, Hausdorff and Mean
Methods
• Same general approach for each method
• Algorithm based on gravity, Hausdorff or mean
pairwise distance matrix :
• Distance between each center of gravity
• Maximum of pair wise distances of two fibers
• Mean of pair wise distances between two fibers
7
Gravity, Hausdorff and Mean
Methods
• Clicking on “Compute
Distribution” will
generate histogram
• There will be (Max –
Min)/Step bars from Min
to Max
• Click on Next to display
generated classes with
Threshold value
parameter
8
Cluster Selector
• Structure of the table :
Number of elements of
Idth class and
associated color
• Click on the number of
elements to select
class
• Click again to deselect
a class
9
Cluster Selector
• Click on “Show” to
display selected
clusters only
• “Undo” to go back to
the Distribution panel
• “Next” to keep changes
and go back to main
menu
10
Normalized Cut
• Choose the number of cluster which will be the
number of classes
• Pairwise mean distance based algorithm
11
Saving your VTK File
• When you are done :
• Enter a VTK Filename on the main menu
Or
• Click on “Save VTK” on the main menu
and it will open a browser.
• If there is a VTK Filename specified on the
main menu, each time you will click on
“Save VTK”, it will update the VTK output
file
12
Visualizati
on
13
Plane Settings
• Display a plane by clicking on Plane Option button
• Default display : Center of gravity
• Change origin and normal settings and update thanks to
the corresponding button
• Retrieve coordinates by clicking “Get Plan Param”
button
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Plane Settings
• Translate the plan by
dragging it
• Rotate the plan by
dragging the normal
arrow
15
General Visualization
Controls
Drag to rotate the view
Shift + Drag to translate the fiber
Ctrl+ Drag to rotate on the
perpendicular axe to the screen
Right dragging or wheel to zoom in or
out
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Contributors
Jean-Baptiste Berger :
[Link]@[Link]
ClementVachet :
cvachet@[Link]
Martin
Styner :
martin_styner@[Link]
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