Information and scripts for the CropAndWeed Dataset

Self-Supervised Vision Transformers for multiplexed imaging datasets

Plant Phenotyping APP

Phenomenal: An automatic open source library for 3D shoot architecture reconstruction and analysis for image-based plant phenotyping

Digital Imaging of Root Traits: Extract trait measurements from images of monocot and dicot roots.

3-Demeter Capture is a tool for building 3-D point clouds from images

Sentinel-2 Crop Trait Retrieval Using Physiological and Phenological Priors from Field Phenotyping (Graf et al., 2023, RSE)

PhenoSV: Interpretable phenotype-aware model for the prioritization of genes affected by structural variants.

A python package for agricultural phenotypic trait extraction from 2D image sets via 3D reconstruction and analysis of 3D point clouds.

A phenotyping pipeline for Python

Scanomatic

Phenotyping Maize over time

Batch process FLIR radiometric (thermal) JPEGs and generate clean lossless images with consistent scale and palette

PyTorch library for MIMIC III Benchmark experiments

developing a portable NLP-based phenotyping system

Computation of root phenes from 3D point clouds.

Main repo for the running/training on the dataset presented in 'High-fidelity Wheat Plant Reconstruction using 3D Gaussian Splatting and Neural Radiance Fields'

Modular, Scalable Phenomic Data Processing Pipelines

deep prototype learning for EHR data

Code for embedding human phenotype ontology (HPO) using Node2Vec and incorporating phenotype frequencies from a hospital-size dataset. Showcased in the linked paper.