Pathology Python Packages

histolab

Library for Digital Pathology Image Processing

eozin

A Rust library to read digital pathology images

wholeslidedata

A package for working with whole-slide data including a fast batch iterator that can be used to train deep learning models.

kaiko-eva

Evaluation framework for oncology foundation models (FMs)

pathopatch

PathoPatcher is a Python project designed for accelerating Whole Slide Image Preprocessing, employing AI-based preprocessing techniques with features like annotation handling, color normalization, and configurable parameters

deepliif

Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23, MICCAI'24]

kfbslide

纯 Python KFB（KFBio）数字病理切片读取库，提供与 OpenSlide 完全兼容的 API

pathml

Tools for computational pathology

slideflow

Powerful, open-source AI tools for digital pathology.

vitaminp

VitaminP: a vision transformer-assisted multimodal integration network for pathology cell segmentation

spatiomic

A python toolbox for spatial omics analysis.

panoptes-he

A multi-resolution CNN to predict cancer histopathologic features

histocartography

Installable histocartography package.

wsinfer

Run patch-based classification on pathology whole slide images.

pyslide

Python whole slide image analysis toolkit

answer

No description available

digipathos

No description available

bio2bel-adeptus

Bio2BEL ADEPTUS.

tissueloc

Localize the tissue regions in whole slide pathology images.

trident-test

Toolkit for large-scale whole-slide image processing.

pymut

Machine learning methods for the prediction of pathology in protein mutations, as in the PMut predictor.