Phenotyping Python Packages

plantcv-mcp

MCP server exposing PlantCV as a measurement instrument — plant traits plus the segmentation overlay they were measured from

traitly

Computer vision toolkit for high-throughput fruit phenotyping.

phenome

Dataset- and model-agnostic tool for phenotyping analysis using deep learning embeddings and image properties.

phenopype

A phenotyping pipeline for Python

psdl-lang

PSDL — Patient Scenario Definition Language: portable, reproducible clinical scenario and cohort definitions over OMOP CDM. Part of the Prometheno open-protocol stack (HAVEN · PSDL · VERITAS).

heartcv

Software for automated quantification of cardiac traits from video of transparent animals.

sam-spot

Generalized and streamlined image phenotyping of dynamic objects over time

torchmimic

PyTorch library for MIMIC III Benchmark experiments