Data Visualization of Fibril Orientation Tian Zhang Cosgrove Lab - - PowerPoint PPT Presentation

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Sep 11, 2022 268 likes •328 views

Data Visualization of Fibril Orientation Tian Zhang Cosgrove Lab 10/27/2016 Goal: Quantify the orientation of fibrillar features Application: Comparing orientation of features between wild type and mutant; Analyzing reorientation/movement

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Data Visualization of Fibril Orientation

Tian Zhang Cosgrove Lab 10/27/2016

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Goal: Quantify the orientation of fibrillar features

Application:

Comparing orientation of features between wild type and mutant; Analyzing reorientation/movement of features.

Toolbox:

SOAX OrientationJ LOCO (Lindeboom et al. Science 342, 2013; David Ehrhardt Group @ Stanford) Microfilament Analyzer (Jacques et al. Plant J. 74, 2013; Kris Vissenberg Group @ University of Antwerp)

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SOAX

1) Open SOAX so-ware; 2) Open an image (remove scale) 3) Set parameters 4) Ini>alize snakes (‘Process’) 5) Deform snakes (‘Process’, will take a long >me…) 6) Save snake files (you can reload these snakes later) 7) ‘Analysis’ - > Compute spherical orienta>on

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SOAX

8) ‘View’ - > Color snakes by Arithmuzal ang

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OrientationJ (fast)

1) Open an image 2) Run ‘Orienta>on 3) Set parameters window, Hue, S Brightness) 4) Run 5) You can save th generated imag

rienta>on info