search

rpomponio / neuroHarmonize

Harmonization tools for multi-site neuroimaging analysis. Implemented as a python package. Harmonization of MRI, sMRI, dMRI, fMRI variables with support for NIFTI images. Complements the work in Neuroimage by Pomponio et al. (2019).
https://pypi.org/project/neuroHarmonize/
MIT License
79 stars 28 forks source link

Cropped images #37

Closed SPChytas closed 8 months ago

SPChytas commented 1 year ago

Hello, and congratulations for the nice codebase. I am trying to use the NeuroHarmonize for the Nifti images, however I get a very weird performance in some cases. I have a dataset of more than 1000 images and after applying the NeuroHarmonize following all the steps of your README, I end up with cropped images, like the ones in the attached file (left is the original, right after NeuroHarmonize). Screenshot from 2023-08-14 18-06-32

rpomponio commented 8 months ago

Related to #40 , this method is not equipped to harmonize raw images. Must register images to a template space and provide pre-processed NIFTIs.