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| * freesurferstats2table - [[https://surfer.nmr.mgh.harvard.edu/fswiki/freesurferstats2table|Export Values from ASEG, WMPARC, APARC, APARC.A2009 and BA to Excel CSV]] - Script to export freesurfer stats results from multiple studies into Excel csv files | * freesurferstats2table - [[https://surfer.nmr.mgh.harvard.edu/fswiki/freesurferstats2table|Export Values from ASEG, WMPARC, APARC, APARC.A2009 and BA to Excel CSV]]- Script to export freesurfer stats results from multiple studies into Excel csv files. * easyfreesurfer - [[http://www.freesurfer.net/fswiki/Easyfreesurfer|Simplify and automate most freesurfer processes by controlling some commands such as; recon-all and mri_convert]]- Script to simplify and automate most freesurfer processes. |
Please use this page to contribute your own scripts. Use the existing format on this page to create a link to a new page, then insert your script in the new page. Please keep your entry on this page short and descriptive, and use the new page to go more in depth. For more instructions, check the comments that are visible when you edit this page.
Use three curly braces ( { { { or } } } without the spaces) at the beginning and end of your script so that line breaks are preserved.
Scripts
scuba - Read data and make snapshots - Here is a sample script that loads up different surface files and saves screen captures.
recon-all - Multiple recon-all - Here some command to recon-all multiple subjects.
multi core aware recon-all - MultiCore recon-all - Here a python script to recon-all multiple subjects in a multicore environment.
roi - Create a functional ROI spreadsheet - This script will take a list of ROI labels created for one subject, copy it to many subjects (mrilabel2label), create thresholded ROIs from functional activation (func2roi-sess), and output text summaries for excel or spss (roisummary-sess). You can do this for a list of analyses and contrasts.
qdec - Export Values from QDEC Experiment- Script to retrieve the scalar values from each subject associated with a fsaverage inflated surface.
excel - Export Values from ASEG to Excel CSV- Script to export ASEG from multiple studies into an Excel csv file.
excelICV - Export Values from ICV to Excel CSV- Script to export ICV from multiple studies into an Excel csv file.
tkmedit tool - MRI Overlay Histogram - This is a little matlab script that will help you to understand the distribution of values in your MRI volume. Requires running from matlab.
freesurferstats2table - Export Values from ASEG, WMPARC, APARC, APARC.A2009 and BA to Excel CSV- Script to export freesurfer stats results from multiple studies into Excel csv files.
easyfreesurfer - Simplify and automate most freesurfer processes by controlling some commands such as; recon-all and mri_convert- Script to simplify and automate most freesurfer processes.