Nifti Python Packages

nibabel

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

dcm2niix

dcm2nii DICOM to NIfTI converter: compiled versions available from NITRC

niivue-streamlit

a WebGL2 based medical image viewer. Supports over 30 formats of volumes and meshes.

med-imagetools

Med-Imagetools: Transparent and Reproducible Medical Image Processing Pipelines in Python

zarrnii

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

auxiliary

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

imio

Loading and saving of image data.

nii2dcm

nii2dcm: NIfTI to DICOM creation with Python

convert-source

Converts and organises source MR image data-sets in accordance with the Brain Imaging Data Structure (BIDS)

data-tracking

This project contains scripts to extract metadata from DICOM files, NIFTI files and spreadsheets, and import them into a database.

som

Stanford open modules for python

vids-validator

Open standard for structuring, validating, and delivering annotated medical imaging datasets for AI/ML

nekton

A python package for DICOM to NifTi and NifTi to DICOM-SEG and GSPS conversion

nii2png

🖼 A lightweight neuroimaging .nii to .png converter for Matlab and Python users

niftiai

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

pyvoxel

Fast Pythonic data structures and tools for wrangling medical images.

erwin

Quantitative MRI toolbox in Python

batch-niistats

Calculate descriptive statistics for large numbers of 3D .nii files and return the output as a .csv file. Pure python code that works very quickly on all operating systems.

nii-info

Display NIfTI image information in a tabular format

biswebpython

This is the repository for the BioImage Suite Web Project

retinex-for-mri

Retinex algorithm for MRI data.

pydcm2niix

dcm2nii DICOM to NIfTI converter: compiled versions available from NITRC

zarrnii-plugin-api

Plugin API for extending zarrnii functionality

iphigen

A command-line program for n-dimensional image enhancement and color balancing.