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Brain Imaging Python Packages

Python packages with the GitHub topic brain-imaging. Sorted by relevance, with stars and monthly downloads.
nipy
nibabel

Python package to access a cacophony of neuro-imaging file formats

1.8M 775 282
nipy
nipype

Workflows and interfaces for neuroimaging packages

584K 825 544
nilearn
nilearn

Machine learning for NeuroImaging in Python

296K 1K 654
templateflow
templateflow

A python client to query TemplateFlow via pyBIDS

38K 8 13
nipreps
nireports

The NiPreps' Reporting and Visualization system - report templates and "reportlets"

17K 11 24
netneurolab
netneurotools

Useful tools from the Network Neuroscience Lab

13K 114 38
ME-ICA
tedana

TE-dependent analysis of multi-echo fMRI

10K 183 104
BUNPC
snirf

Python package for reading, writing and validating Shared Near Infrared Spectroscopy Format (SNIRF) files

9K 25 16
nipreps
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.

6K 731 314
nipreps
fmriprep-docker

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.

5K 731 314
netneurolab
neuromaps

A toolbox for comparing brain maps

3K 320 65
PolarBean
deepslice

A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.

3K 120 30
Mentalab-hub
explorepy

No description available

1K 54 23
aramis-lab
clinicadl

Framework for the reproducible processing of neuroimaging data with deep learning methods

1K 178 60
GiulioRusso
nidataset

A set of utilities for handling NIfTI datasets, including slice extraction, volume manipulation, and preprocessing of medical imaging data.

1K 1 0
elliohow
frat-brain

Application for ROI fMRI data analysis.

1K 13 4
BUNPC
pysnirf2

Python package for reading, writing and validating Shared Near Infrared Spectroscopy Format (SNIRF) files

802 25 16
codingfisch
niftiview

View volumetric images in Python 🧠

417 12 0
nipy
nipype-ancp

Workflows and interfaces for neuroimaging packages

401 825 544
AdebayoBraimah
convert-source

Convert source DICOM, PAR REC or NIFTI image data to BIDS directory layout

383 1 0
abhi4ssj
quicknat-pytorch

PyTorch Implementation of QuickNAT and Bayesian QuickNAT, a fast brain MRI segmentation framework with segmentation Quality control using structure-wise uncertainty

355 104 34
tsbinns
mni-to-atlas

A simple Python-based tool for finding brain atlas regions based on MNI coordinates.

354 13 0
codingfisch
niftiai

Train neural nets on 3D images (e.g. MRIs) 🧠

275 3 0
nipreps
niquery

A principled tool to query open neuroimaging datasets, extract relevant information and create new datasets for research

153 0 1
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