Mri Python Packages

dcm2niix

dcm2nii DICOM to NIfTI converter: compiled versions available from NITRC

mrzerocore

Python package and documentation for MR-zero

sigpy

Python package for signal processing, with emphasis on iterative methods

pypulseq

Pulseq in Python

totalspineseg

Robust Segmentation and Labeling of Vertebrae, Intervertebral Discs, Spinal Cord, and Spinal Canal in MRI Images Using nnU-Net and Iterative Algorithm.

torchkbnufft

A high-level, easy-to-deploy non-uniform Fast Fourier Transform in PyTorch.

deepinv

DeepInverse: a PyTorch library for solving imaging inverse problems using deep learning

smriprep

Structural MRI PREProcessing (sMRIPrep) workflows for NIPreps (NeuroImaging PREProcessing tools)

phantominator

Generate numerical phantoms.

ssfp

SSFP simulation and algorithms.

bids-manager

GUI and CLI tool for raw-to-BIDS conversion, curation, metadata editing, and validation for MRI, EEG, MEG, and physiological recordings.

scitex-dataset

Multi-domain scientific dataset fetcher (neuroscience, biology, medical)

fastmri

A large-scale dataset of both raw MRI measurements and clinical MRI images.

mriqc

Automated Quality Control and visual reports for Quality Assessment of structural (T1w, T2w) and functional MRI of the brain

mipcandy

Build a complete experiment pipeline for your PyTorch MIP model in 10 seconds.

auxiliary

helpful functions for handling biomedical-imaging data in DICOM or NIfTI format

intensity-normalization

Normalize MR image intensities in Python

brainles-preprocessing

preprocessing tools for multi-modal 3D brain imaging

mikan-rs

A medical image kit for segmentation metrics evaluation

bidscoin

BIDScoin converts your source-level neuroimaging data to BIDS

zarrnii

Package for working with OME-Zarr and NIFTI images in a unified manner, with a focus on spatial transformations

brainweb

BrainWeb: Multimodal models of 20 normal brains

tensorflow-mri

A Library of TensorFlow Operators for Computational MRI

time-python

This repository contains the code of UtiliziNg tRActography to uncoVEr muLti-fixel microstructure (UNRAVEL).