Repositories list

• repo-exporter

  Public
  Python scripts that collect key info (Name, description, creation date, last updated date, contributors, etc.) from all repos in a GitHub or Hugging Face organi…

  githubapimetadata+ 9

  githubapimetadatainventorygoogle-sheetsrepository-managementapi-integrationfair-principleshuggingfacemetadata-export+ 2

  Python

  •

  MIT License

  •00 forks•22 stars•1010 issues•33 pull requests•Updated Jul 24, 2026Jul 24, 2026

• fair_drones

  Public
  The FAIR² Drones Data Standard provides a comprehensive framework for documenting drone-based wildlife datasets, ensuring they are Findable, Accessible, Interop…

  uavdronerobotics+ 8

  uavdroneroboticsstandardsfairecologyanimal-behaviormetadata-standardsai-readydataset-documentation+ 1

  Creative Commons Zero v1.0 Universal

  •00 forks•22 stars•11 issue•11 pull request•Updated Jul 24, 2026Jul 24, 2026

• imageomics.github.io

  Public
  Repository to host the Imageomics Institute's website.

  HTML

  •

  Creative Commons Attribution 4.0 International

  •00 forks•00 stars•00 issues•11 pull request•Updated Jul 24, 2026Jul 24, 2026

• simple-localized-counterfactuals

  Public
  Source code for the CVPR HOW workshop paper

  Jupyter Notebook

  •

  MIT License

  •00 forks•00 stars•00 issues•1717 pull requests•Updated Jul 22, 2026Jul 22, 2026

• BeetleFlow

  Public
  Official repo for paper "BeetleFlow: An Integrative Deep Learning Pipeline for Beetle Image Processing"

  Python

  •

  MIT License

  •11 fork•00 stars•33 issues•66 pull requests•Updated Jul 22, 2026Jul 22, 2026

• saev

  Public
  Sparse autoencoders for vision

  computer-visionsparse-autoencodersinterpretability

  computer-visionsparse-autoencodersinterpretability

  Python

  •

  MIT License

  •1010 forks•6464 stars•77 issues•1919 pull requests•Updated Jul 22, 2026Jul 22, 2026

• cautious-robot

  Public
  Simple images from CSV downloader that runs and records checksums on downloaded image folder.

  clicsvdownload+ 7

  clicsvdownloadimagesfairreproducibilitychecksumsdata-accessverifierdownsized

  Python

  •

  MIT License

  •11 fork•55 stars•1717 issues•55 pull requests•Updated Jul 21, 2026Jul 21, 2026

• kabr-tools

  Public
  Modular tools pipeline for annotating animal behavior. These were specifically designed during construction of the KABR dataset, and have been generalized with …

  videodroneannotation+ 6

  videodroneannotationconservationzebragiraffecvatanimal-behavior-recognitiondrone-videos

  Python

  •

  MIT License

  •00 forks•99 stars•77 issues•22 pull requests•Updated Jul 21, 2026Jul 21, 2026

• sage-summer-2026-bioclip

  Public
  Jupyter Notebook

  •

  MIT License

  •11 fork•11 star•00 issues•00 pull requests•Updated Jul 21, 2026Jul 21, 2026

• emb-explorer

  Public
  An interactive tool for classifying images with a pretrained model and exploring clustering results in 2D space.

  clusteringexploratory-data-analysiseda+ 5

  clusteringexploratory-data-analysisedadata-visualizationdimensionality-reductionembeddingexploratory-data-visualizationsimage-exploration

  Python

  •

  MIT License

  •00 forks•44 stars•88 issues•22 pull requests•Updated Jul 16, 2026Jul 16, 2026

• bioclip-image-search-lite

  Public
  Lightweight BioCLIP image search service using source URLs, FAISS, and DuckDB. Find the most visually similar images across 200M+ samples from the TreeofLife da…

  image-searchsimilarity-searchfaiss+ 2

  image-searchsimilarity-searchfaissduckdbbioclip

  Python

  •

  MIT License

  •11 fork•00 stars•88 issues•44 pull requests•Updated Jul 16, 2026Jul 16, 2026

• GGR_pipeline

  Public
  This work presents a modular software pipeline and end-to-end workflow for video-based animal re-identification, which assigns consistent individual IDs by clus…

  Jupyter Notebook

  •

  MIT License

  •11 fork•11 star•99 issues•11 pull request•Updated Jul 14, 2026Jul 14, 2026

• Mothbox_Firmware

  Public
  This is where the firmware (software running on the device) is developed for the Mothbox. It's copied originally over from https://github.com/Digital-Naturalism…

  C

  •

  MIT License

  •22 forks•00 stars•00 issues•00 pull requests•Updated Jul 14, 2026Jul 14, 2026

• BeetleVerse

  Public
  Jupyter Notebook

  •

  MIT License

  •00 forks•00 stars•44 issues•22 pull requests•Updated Jul 14, 2026Jul 14, 2026

• lca

  Public
  An independent implementation of the Local Clusters and their Alternatives (LCA) graph-based ID curation algoritihm

  Jupyter Notebook

  •

  Apache License 2.0

  •66 forks•11 star•00 issues•00 pull requests•Updated Jul 13, 2026Jul 13, 2026

• catalog

  Public template
  Catalog app for Imageomics code, data, models, and spaces hosted on GitHub and Hugging Face. Designed for improved discoverability of Imageomics products, the c…

  githubapiopen-source+ 12

  githubapiopen-sourcedatacatalogcodemodelsinventoryopen-sciencespaces+ 5

  JavaScript

  •

  MIT License

  •00 forks•1010 stars•88 issues•11 pull request•Updated Jul 13, 2026Jul 13, 2026

• Collaborative-distributed-science-guide

  Public template
  Template guide to collaborative work, including GitHub and Hugging Face workflows. Co-developed with the Imageomics Guide.

  gitmetadatadocumentation+ 14

  gitmetadatadocumentationdatacodeguidebest-practicesmodelsprojectscollaboration+ 7

  Python

  •

  Creative Commons Zero v1.0 Universal

  •11 fork•11 star•1313 issues•00 pull requests•Updated Jul 10, 2026Jul 10, 2026

• hpc-inference

  Public
  A high-performance computing solution for efficient batch inference on large-scale image datasets.

  Python

  •

  MIT License

  •00 forks•00 stars•1212 issues•22 pull requests•Updated Jul 6, 2026Jul 6, 2026

• bioclip-ecosystem

  Public
  Centralized resource to describe and link out to all components of the BioCLIP project (Code, Models, Datasets, Spaces).

  datacodereference+ 6

  datacodereferencemodelbenchmarksdatasetsproject-websitetree-of-lifebioclip

  HTML

  •

  MIT License

  •00 forks•11 star•77 issues•00 pull requests•Updated Jul 2, 2026Jul 2, 2026

• saev-demo

  Public
  Sparse autoencoders for vision

  Python

  •

  MIT License

  •1010 forks•00 stars•00 issues•2323 pull requests•Updated Jul 2, 2026Jul 2, 2026

• TreeOfLife-toolbox

  Public
  Source-specific tools for processing data (images) downloaded using distributed downloader and relies on MPI.

  face-detectioncitizen-scienceimage-filtering+ 5

  face-detectioncitizen-scienceimage-filteringanimal-detectionspecimen-recordstree-of-lifeimageomicsdataset-processing

  Jupyter Notebook

  •

  MIT License

  •11 fork•77 stars•1010 issues•2626 pull requests•Updated Jul 1, 2026Jul 1, 2026

• pybioclip

  Public
  Python package and CLI that simplifies using the BioCLIP family of foundation models.

  taxonomybiologycv+ 5

  taxonomybiologycvimage-classificationclipcommand-line-interfacebioclipknowledge-guided

  Python

  •

  MIT License

  •1414 forks•6464 stars•1313 issues•33 pull requests•Updated Jun 30, 2026Jun 30, 2026

• Prompt_CAM

  Public
  This is an official implementation for PROMPT-CAM: A Simpler Interpretable Transformer for Fine-Grained Analysis (CVPR'25). Explore fine-grained trait distincti…

  computer-visionsaliency-mapfine-grained-classification+ 6

  computer-visionsaliency-mapfine-grained-classificationinterpretable-aiexplainable-aixaiinterpretable-machine-learningcounterfactual-explanationsvision-transformer

  Jupyter Notebook

  •

  MIT License

  •77 forks•7676 stars•33 issues•11 pull request•Updated Jun 30, 2026Jun 30, 2026

• wildlife-drone-maneuver

  Public
  Drone maneuver testbed for in-situ wildlife studies

  Python

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Jun 30, 2026Jun 30, 2026

• bioclip

  Public
  This is the repository for the BioCLIP model and the TreeOfLife-10M dataset [CVPR'24 Oral, Best Student Paper].

  computer-visiontaxonomyclip+ 2

  computer-visiontaxonomyclipknowledge-guided-machine-learningimageomics

  Python

  •

  Other

  •2525 forks•270270 stars•33 issues•00 pull requests•Updated Jun 25, 2026Jun 25, 2026

• evolution-workshop-2026

  Public
  Tools tutorials for Evolution 2026 Conference Imageomics Workshop

  tutorialsworkshop-website

  tutorialsworkshop-website

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jun 25, 2026Jun 25, 2026

• FloraPalooza-2026

  Public
  FloraPalooza: A collaborative, hands-on workshop bringing together biologists, ecologists, Al/ML 26 researchers, data and specimen curators, and software develo…

  plantstreesworkshop-website+ 2

  plantstreesworkshop-websiteflowerspalooza

  Creative Commons Zero v1.0 Universal

  •00 forks•11 star•00 issues•00 pull requests•Updated Jun 12, 2026Jun 12, 2026

• MAVRIC

  Public
  Video-based Animal Reidentification Pipeline

  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 12, 2026Jun 12, 2026

• TraitBlender

  Public
  Blender addon for simulating raw datasets under known evolutionary models

  imagesevolutionphylogenetic-trees+ 5

  imagesevolutionphylogenetic-treesphylogeneticssimulationsraw-datablender-addon3d-models

  Python

  •

  MIT License

  •22 forks•44 stars•00 issues•00 pull requests•Updated Jun 11, 2026Jun 11, 2026

• HDR-SMood-Challenge

  Public
  Repository for Imageomics' CodaBench challenge as part of the HDR Scientific Mood ML Challenge.

  out-of-distributionbeetlesml-challenge

  out-of-distributionbeetlesml-challenge

  Python

  •

  MIT License

  •00 forks•55 stars•11 issue•00 pull requests•Updated Jun 8, 2026Jun 8, 2026