https://github.com/aaronearlerichardson/cmrif_preprocess

Cornell University fMRI preprocessing script and library
https://github.com/aaronearlerichardson/cmrif_preprocess

Last synced: 19 days ago
JSON representation

Cornell University fMRI preprocessing script and library

• Host: GitHub
• URL: https://github.com/aaronearlerichardson/cmrif_preprocess
• Owner: Aaronearlerichardson
• License: mit
• Created: 2019-10-22T18:59:43.000Z (about 5 years ago)
• Default Branch: master
• Last Pushed: 2023-04-08T00:40:25.000Z (almost 2 years ago)
• Last Synced: 2024-11-01T00:11:45.864Z (2 months ago)
• Language: Python
• Size: 2.44 MB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

Awesome Lists containing this project

README

        
# CMRIF_preprocess

This program is a centralized hub for all your MRI preprocessing needs. It has three main features: A disk image optimized for MRI computation, a script that takes DICOM or NIFTI images and organizes them into BIDS standard formatting, and finally a modular preprocessing script that uses nipype to allow you to mix and match different preprocessing packages from different software (such as using BET from FSL and AFNI's anat2epi).

# Disk Image Includes

Software:

Afni, Freesurfer, Fsl, Anaconda (python 3.7)

Python packages: 

boto3, pathlib, pybids, pydicom, nipype, pip, tedana

Ubuntu packages:

dcm2niix, pigz

# Host Requirements

### Linux:

xauth

### Mac:

xQuartz

***

To begin, head over to our [Getting Started](https://github.com/Aaronearlerichardson/CMRIF_preprocess/wiki/Getting-Started) page.