Repository Index

Multi-platform, free open source software for visualization and image computing.

• medical-imaging
• vtk
• itk
• python

⚡High Performance DICOM Medical Image Parser in Go.

• dicom
• dicom-images
• golang
• golang-library

Pathology Foundation Model - Nature Medicine

• foundation
• foundation-model
• histopathology
• mahmoodlab

Pathology Language and Image Pre-Training (PLIP) is the first vision and language foundation model for Pathology AI (Nature Medicine). PLIP is a large-scale pre-trained model that can be used to extract visual and language features from pathology images and text description. The model is a fine-tuned version of the original CLIP model.

• artificial-intelligence
• clip
• pathology
• vision-and-language

Library for multiscale visualization of high-resolution multiplexed bioimaging data on the web. Directly renders Zarr and OME-TIFF.

• hubmap
• imaging
• openmicroscopy
• ome-tiff

A Python interface to access neuroanatomical atlases

• neuroscience
• python
• microscopy
• registration

Automated 3D brain registration with support for multiple species and atlases.

• registration
• atlases
• brain
• neuroscience

Minerva Story is an image viewer that is designed specifically to make it easy for non-expert users to interact with complex tissue images.

• minerva
• microscopy
• ome
• immunofluorescence

mrQA: tools for quality assurance in medical imaging datasets, including protocol compliance

• qa
• mri
• neuroimaging
• niqc

Functions for the input/output and visualization of medical imaging data that follow either the ANALYZE, NIfTI or AFNI formats.

• nifti
• afni
• analyze