STEP 2: Preprocessing

  • Input Directories for Preprocessing:
    Click the Preprocessing button. Select the folders as data dirs where STEP 1 outputs. You can check the from text file and select a brant_preprocess_paths.txt file which has already automatically created.
  • Preprocessing Settings:
    Check the checkboxes you need, remember to modify parameters. You donnot need to check the Coregister checkbox without structural images. Remember to change the source parameter in Normalise to co*.nii if you’re preprocessing images with structural images.


If an error occours during preprocessing, the R (refresh) button can recover the run button.

  • Further information about preprocessing can be found in:
  • Further information about output files can be found in the Filename part.

fig.1 Preprocessing