Scripts for BrainVoyager (Python, *.py)
- Details
- Category: Available Scripts
- Last Updated: 23 March 2020
- Published: 13 April 2018
- Hits: 1556
Introduction
The Python-scripts (*.py) below can be used from BrainVoyager 20. Python is an experimental feature in BrainVoyager 20.0. For more information about Python in BrainVoyager, please see Rainer's BV blog.They are an addition to the scripts that are available in the folder /(My) Documents/BVExtensions/PythonScripts/ after installation of BrainVoyager. For Python in BrainVoyager documentation, please see http://fladd.github.io/BVPython/index.html. For information about the Python language and some useful libraries, see: Python website and the SciPy website.
Also, the JavaScript language can still be used in BrainVoyager (see JavaScripts), and on Mac, AppleScript can be used.
Scripts
Simple script to read/write a transformation file (only type 2, *_a12.trf): read_transformation_file_v021.py (zipped)
Simple script to show slices of VMR volumes (one anatomical, one VTC-in-VMR volume), see figure below: show_img_slices.py (zipped)
Script to calculate mutual information between an anatomical image (VMR) and a functional image saved as VMR: mutual_information_in_brainvoyager_v01.py (zipped)
Usage: load in BrainVoyager Python editor, click 'Run'. File dialogs asking for the VMRs will appear, and 9 figures of histograms, etc. A next version will be adapted for VTC or FMR.
Simple script to segment a VMR file by setting all values above a threshold to blue (colour 240): simple_segment_vmr_using_threshold_v01.py (zipped)
Script to calculate the Dice similarity coefficient between an anatomical image (VMR) and a functional image saved as VMR: dice_similarity_coefficient_v01.py (zipped)
Usage: load in BrainVoyager Python editor, click 'Run'. File dialogs asking for the VMRs will appear, and the Dice similarity coefficient will be printed to the BrainVoyager Log tab. A next version will be adapted for VTC or FMR.
Latest update: 23-03-20 22:47 GMT