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    63 repositories

    • kabr-tools

      Public
      Tools for working with data for annotating animal behavior. These were specifically designed during construction of the KABR dataset.
      annotationanimal-behavior-recognitiondrone-videos
      Jupyter Notebook
      •
      MIT License
      •0•2•18•10•Updated Dec 12, 2024Dec 12, 2024

    • 2025-02-11-osu-online

      Public
      Software Carpentry Workshop on Version Control with Git and R for Scientific Reproducibility
      HTML
      •
      Other
      •0•0•0•0•Updated Dec 11, 2024Dec 11, 2024

    • snakemake-workshop

      Public
      Lesson on creating a Snakemake Workflow with an Imageomics emphasis
      Other
      •0•1•4•0•Updated Dec 10, 2024Dec 10, 2024

    • pybioclip

      Public
      Python package that simplifies using the BioCLIP foundation model.
      Python
      •
      MIT License
      •3•22•4•1•Updated Dec 9, 2024Dec 9, 2024

    • Imageomics-guide

      Public
      Imageomics-focused guide to collaborative work, including GitHub and Hugging Face workflows.
      gitmetadatadocumentationdataguidebest-practicesmodelsprojectscollaborative-workflowscli-cheatsheet
      Python
      •
      Creative Commons Zero v1.0 Universal
      •0•1•1•0•Updated Dec 3, 2024Dec 3, 2024

    • wing-segmentation

      Public
      Butterfly wing segmentation
      rgbsegmentationbutterflyrulerwhitebalancecolorcheckerwing-segmentationheliconiusforewingshindwings
      Jupyter Notebook
      •
      MIT License
      •0•0•1•4•Updated Dec 2, 2024Dec 2, 2024

    • animal-id

      Public
      Currently add viewpoint classifier only, but will update entire pipeline
      Python
      •
      MIT License
      •0•0•0•1•Updated Dec 2, 2024Dec 2, 2024

    • data-workshop-AH-2024

      Public
      Repository for Mastering Data Management Workshop at the All Hands 2024.
      Jupyter Notebook
      •
      Creative Commons Zero v1.0 Universal
      •2•2•0•0•Updated Nov 26, 2024Nov 26, 2024

    • HDR-anomaly-challenge

      Public
      Repository for Imageomics' CodaBench challenge as part of the HDR Anomaly ML Challenge.
      Python
      •
      MIT License
      •1•4•1•1•Updated Nov 26, 2024Nov 26, 2024

    • HDR-anomaly-challenge-sample

      Public
      Sample Submission Repository for the 2024 HDR Anomaly Challenge
      Jupyter Notebook
      •
      MIT License
      •1•3•0•0•Updated Nov 25, 2024Nov 25, 2024

    • Andromeda

      Public
      A website that enables users to explore high-dimensional image data
      Jupyter Notebook
      •
      MIT License
      •1•2•6•1•Updated Nov 25, 2024Nov 25, 2024

    • HComPNet

      Public
      This repository presents the PyTorch code for HComP-Net (Hierarchy aligned Commonality through Prototypical Networks)
      computer-visionevolutiontraitsphylogenyexplainable-ai
      Python
      •
      MIT License
      •1•0•0•13•Updated Nov 22, 2024Nov 22, 2024

    • phylo-diffusion

      Public
      Code Repository for Phylo-Diffusion. Accepted at ECCV 2024
      Python
      •
      MIT License
      •1•3•0•0•Updated Nov 21, 2024Nov 21, 2024

    • 2018-NEON-beetles-processing

      Public
      Processing code and exploratory notebooks for BeetlePalooza dataset (2018 NEON Ethanol-preserved Ground Beetles).
      annotationimagesedasegmentationbeetles
      Jupyter Notebook
      •
      MIT License
      •2•0•0•3•Updated Nov 16, 2024Nov 16, 2024

    • dna-trait-analysis

      Public
      Goal: to find associations between dna data and visual traits.
      Jupyter Notebook
      •
      MIT License
      •0•2•5•0•Updated Nov 14, 2024Nov 14, 2024

    • cautious-robot

      Public
      Simple images from CSV downloader that runs and records checksums on downloaded image folder.
      csvdownloadimageschecksumsverifierdownsized
      Python
      •
      MIT License
      •0•2•8•1•Updated Nov 6, 2024Nov 6, 2024

    • VLM4Bio

      Public
      Code for VLM4Bio, a benchmark dataset of scientific question-answer pairs used to evaluate pretrained VLMs for trait discovery from biological images.
      fishbirdbiologycvbenchmarksimage-classificationimage-recognitiontraitsbutterflyvlms
      Python
      •
      Apache License 2.0
      •2•3•0•0•Updated Oct 31, 2024Oct 31, 2024

    • Butterfly-mimicry

      Public
      Exploring the influence of acuity on classification accuracy and mimicry in Heliconius butterflies.
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

    • parquet-cli

      Public
      An container for more convenient use of Parquet files at the command line.
      Dockerfile
      •
      MIT License
      •0•0•2•0•Updated Oct 18, 2024Oct 18, 2024

    • color-calibration

      Public
      Provides python code for calibrating image colors containing color cards
      Python
      •
      MIT License
      •0•0•1•0•Updated Oct 14, 2024Oct 14, 2024

    • bioclip

      Public
      This is the repository for the BioCLIP model and the TreeOfLife-10M dataset [CVPR'24 Oral, Best Student Paper].
      computer-visiontaxonomyclipknowledge-guided-machine-learningimageomics
      Python
      •
      Other
      •14•172•3•0•Updated Oct 3, 2024Oct 3, 2024

    • distributed-downloader

      Public
      MPI-based distributed downloading tool for retrieving data from diverse domains.
      downloaderdataset-generationmpi-applications
      Python
      •
      MIT License
      •0•2•7•2•Updated Oct 1, 2024Oct 1, 2024

    • bioclip-vector-db

      Public
      Vector database training data retrieval of BioCLIP-embedded nearest neighbors.
      MIT License
      •0•0•3•1•Updated Sep 4, 2024Sep 4, 2024

    • BeetlePalooza-2024

      Public
      BeetlePalooza collaborative hands-on development event to be held at OSU August 12-15
      Jupyter Notebook
      •
      Creative Commons Zero v1.0 Universal
      •0•3•12•0•Updated Aug 21, 2024Aug 21, 2024

    • 2024-08-16-osu-online

      Public
      Software Carpentry Workshop on Version Control with Git and R for Scientific Reproducibility
      HTML
      •
      Other
      •0•0•0•0•Updated Aug 21, 2024Aug 21, 2024

    • SlowFast

      Public
      PySlowFast: video understanding codebase from FAIR for reproducing state-of-the-art video models.
      Python
      •
      Apache License 2.0
      •1.2k•0•0•0•Updated Aug 20, 2024Aug 20, 2024

    • sdm-beetlepalooza

      Public
      MIT License
      •0•0•0•0•Updated Aug 20, 2024Aug 20, 2024

    • char-sim

      Public
      Pipeline to create model for comparing character state descriptions including ontology similarity
      Python
      •
      MIT License
      •1•0•5•1•Updated Aug 19, 2024Aug 19, 2024

    • EcoPalette

      Public
      Integration of environmental data into species images to assess model accuracy importance.
      R
      •0•0•0•0•Updated Aug 15, 2024Aug 15, 2024

    • sum-buddy

      Public
      Generate and save checksums for all (or certain) contents of given directory.
      csvchecksumsfile-verification
      Python
      •
      MIT License
      •0•2•5•0•Updated Jul 30, 2024Jul 30, 2024