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  1. Image Analysis
  2. Preprocessing

PyDesigner

Last updated 10 months ago

PyDesigner is a piece of software developed in-house for the purposes of artifact correction and tensor calculation. This process takes raw data (either nifti or dicom format) and corrects that data of known artifacts and then outputs parametric maps which are used for downstream analysis.

You can find more information about PyDesigner, including installation procedures and user guidance here:

See also: PyDesigner v1.0: A Pythonic Implementation of the DESIGNER Pipeline for Diffusion Magnetic Resonance Imaging on JoVE (the Journal of Visualized Experiments)

In short, PyDesigner can be installed with the command:

pip install PyDesigner-DWI

And called with the following command:

pydesigner -o [output path] -s [input path].nii
🖼️
LogoGitHub - muscbridge/PyDesigner: A hands-free DTI, DKI, FBI and FBWM preprocessing pipeline. Information on algorithms and preprocessing steps are available at https://www.biorxiv.org/content/10.1101/2021.10.20.465189v1 A video tutorial on PyDesigner and its usage is now available at https://www.youtube.com/watch?v=mChQFuQqX3kGitHub