Scientific Software
Updated 10 months ago

TE-dependent analysis of multi-echo fMRI with tedana — Peer-reviewed • Rank 18.8 • Science 95%

TE-dependent analysis of multi-echo fMRI with tedana - Published in JOSS (2021)

Scientific Software · Peer-reviewed
Scientific Software
Updated 10 months ago

fRAT — Peer-reviewed • Rank 7.6 • Science 100%

fRAT: an interactive, Python-based tool for region-of-interest summaries of functional imaging data - Published in JOSS (2023)

Mathematics Medicine Sociology
Scientific Software · Peer-reviewed
Scientific Software
Updated 10 months ago

Connectome Mapper 3 — Peer-reviewed • Rank 11.1 • Science 95%

Connectome Mapper 3: A Flexible and Open-Source Pipeline Software for Multiscale Multimodal Human Connectome Mapping - Published in JOSS (2022)

Mathematics Sociology Economics
Scientific Software · Peer-reviewed
Updated 10 months ago

pycortex • Rank 17.2 • Science 67%

Pycortex is a python-based toolkit for surface visualization of fMRI data

Updated 10 months ago

phys2cvr • Rank 10.0 • Science 59%

python module to compute cerebrovascular reactivity mapping and other related maps

Updated 10 months ago

fmriprep • Rank 19.1 • Science 49%

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.

Updated 10 months ago

nibabies • Rank 12.5 • Science 46%

fMRIPrep Lifespan - A robust, transparent workflow tailored for neonate and infant MRI

Updated 10 months ago

csg_mri_pipelines • Rank 4.0 • Science 49%

MRI preprocessing and analysis pipelines and tools for the study of disorders of consciousness

Updated 10 months ago

brainplotlib • Rank 7.5 • Science 41%

A lightweight package to plot brain surfaces with Python.

Updated 10 months ago

phys2denoise • Rank 8.1 • Science 36%

A toolbox and collection of scripts to prepare physiology data for fMRI denoise

Updated 10 months ago

https://github.com/bids-apps/rshrf • Rank 11.4 • Science 20%

Resting state HRF estimation from BOLD-fMRI signal

Updated 10 months ago

fmriqa • Rank 6.1 • Science 13%

An R package for fMRI quality assurance

Updated 10 months ago

simultaneous-fmri-and-eyetracking • Science 44%

Project repository for our first study on observing program comprehension with simultaneous fMRI and eye tracking

Updated 10 months ago

https://github.com/alfa-group/neural-program-comprehension • Science 23%

[eLife 2020] "Comprehension of computer code relies primarily on domain-general executive brain regions" by Anna A. Ivanova, Shashank Srikant, Yotaro Sueoka, Hope H. Kean, Riva Dhamala, Una-May O'Reilly, Marina U. Bers, Evelina Fedorenko

Updated 10 months ago

neuroim2 • Science 26%

R data structures and function for fMRI-focused neuroimaging analysis

Scientific Software
Updated 10 months ago

SPM 25 — Peer-reviewed • Science 96%

SPM 25: open source neuroimaging analysis software - Published in JOSS (2025)

Updated 10 months ago

https://github.com/csinva/total-variation-abide • Science 13%

Experiments with using total variation regularization on the ABIDE fmri dataset.

Updated 10 months ago

caton-pcb • Science 39%

Hardware design files for wireless EEG system used in concurrent TMS-EEG-fMRI

Updated 10 months ago

cpp_bids • Science 67%

a set of matlab / octave function to create BIDS comptible folder structure and filenames

Updated 10 months ago

brainsurfer • Science 49%

MATLAB toolbox for visualizing brain data on surfaces.

Updated 10 months ago

cpp_ptb • Science 67%

a set of function to make it easier to create behavioral, EEG, fMRI experiment with psychtoolbox

Updated 10 months ago

fmripost-rapidtide • Science 26%

A BIDS App for running rapidtide on a preprocessed fMRI dataset.

Updated 10 months ago

godec • Science 26%

Go Decomposition for fMRI data, in Python. A work in progress.

Updated 10 months ago

ni-edu • Science 26%

Student version of NI-edu courses

Updated 10 months ago

fmriflows • Science 26%

fmriflows is a consortium of many (dependent) fMRI analysis pipelines, including anatomical and functional pre-processing, univariate 1st and 2nd-level analysis, as well as multivariate pattern analysis.

Updated 10 months ago

halfpipe • Science 49%

ENIGMA HALFpipe is a user-friendly software that facilitates reproducible analysis of fMRI data

Updated 10 months ago

https://github.com/brains-on-code/paper-esec-fse-2017 • Science 23%

Measuring Neural Efficiency of Program Comprehension. Preprint of our paper:

Scientific Software
Updated 10 months ago

NeuroCAPs — Peer-reviewed • Science 93%

NeuroCAPs: A Python Package for Performing Co-Activation Patterns Analyses on Resting-State and Task-Based fMRI Data - Published in JOSS (2025)

Sociology (40%)
Scientific Software · Peer-reviewed
Updated 10 months ago

ddmra • Science 49%

Code for running distance-dependent motion-related artifact analyses in Python

Updated 10 months ago

fmripost-phase • Science 26%

An attempt at an fMRIPost workflow for handling phase data

Updated 10 months ago

network_tda_tutorial • Science 49%

This repository is dedicated for the tutorial on network and topological neuroscience.

Updated 10 months ago

eCobidas • Science 57%

Working repository to turn the COBIDAS guidelines to report methods and results in neuroimaging into a user friendly checklist

Updated 10 months ago

mriscripts • Science 18%

Structural and functional MRI data analysis scripts

Updated 10 months ago

fmri_processing_scripts • Science 41%

legacy signal processing leveraging afni, ants, fsl, nipy, robex, and wavelet toolbox - brnfswdktm

Updated 10 months ago

fmripost-aroma • Science 26%

Run ICA-AROMA on fMRIPrep derivatives

Updated 10 months ago

bidspm • Science 67%

an SPM centric BIDS app