Medicine Python Packages

pytdc

Therapeutics Commons (TDC): Multimodal Foundation for Therapeutic Science

medpython

Medial Research Libs Infrastructure

dhti-elixir-base

Base classes for dhti-elixir

med-seg-diff-pytorch

MedSegDiff - SOTA medical image segmentation - Pytorch

viprs

Variational Inference of Polygenic Risk Scores

pycohortflow

Lightweight Cohort Flow Diagrams built on Matplotlib — with an interactive browser-based generator.

orthanc-rest-client

A REST client for Orthanc DICOM servers

medialpy

A small python package that allows the user to look up common medical abbreviations.

opengpt

A framework for creating grounded instruction based datasets and training conversational domain expert Large Language Models (LLMs).

meddatasets

The meddatasets library contains clinical research datasets, cancer diagnostic records, chronic disease statistics, smoking and cancer risk data, worldwide COVID-19 case records, water pollution and disease impact data, and much more.

beren

REST client for Orthanc DICOM servers

zms

Running on Python 3.10+

p3gpt

Wrappers for easier generative biology workflows

gs1grader

GS1Grader - Grading datamatrices based on GS1 guidelines

temporai

TemporAI: ML-centric Toolkit for Medical Time Series

medpython-etl

Medial EarlySign ETL Library

oncomark

A deep learning tool designed to predict Cancer Hallmark activities from tumor biopsy samples.

ray-voxel-overlap

Estimating system-matrices for tomography

medkit-learn

The Medkit-Learn(ing) Environment: Medical Decision Modelling through Simulation (NeurIPS 2021) by Alex J. Chan, Ioana Bica, Alihan Huyuk, Daniel Jarrett, and Mihaela van der Schaar.

drg2txt

Map MS-DRG v38.1 DRG/MDC numeric codes to their text description

zms3

Running on Python 2.7 (stable, production ready)