TE-dependent analysis of multi-echo fMRI with tedana
TE-dependent analysis of multi-echo fMRI with tedana - Published in JOSS (2021)
fRAT
fRAT: an interactive, Python-based tool for region-of-interest summaries of functional imaging data - Published in JOSS (2023)
clinicadl
Framework for the reproducible processing of neuroimaging data with deep learning methods
fmriprep
fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.
pysnirf2
Python package for reading, writing and validating Shared Near Infrared Spectroscopy Format (SNIRF) files
nireports
The NiPreps' Reporting and Visualization system - report templates and "reportlets"
https://github.com/tsbinns/mni_to_atlas
A simple Python-based tool for finding brain atlas regions based on MNI coordinates.
https://github.com/codingfisch/niftiview-app
Standalone app for viewing volumetric images 🧠 based on Python
nifreeze
A flexible framework for volume-wise artifact estimation and correction across multiple 4D neuroimaging modalities (diffusion MRI, functional MRI, and PET)
https://github.com/codingfisch/niftiai
Train neural nets on 3D images (e.g. MRIs) 🧠
automatedfreesurfer