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@talmolab Talmo Lab at the Salk Institute

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    75 repositories

    • lablink

      Public
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•2•24•4•Updated Nov 29, 2025Nov 29, 2025

    • stac-mjx

      Public
      Implementation of STAC using MJX for GPU acceleration. Part of VNL project.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •2•13•37•0•Updated Nov 27, 2025Nov 27, 2025

    • sleap

      Public
      A deep learning framework for multi-animal pose tracking.
      deep-learningbehavior-analysisleappose-estimationanimal-trackinganimal-pose-estimationsleap
      Python
      •
      BSD 3-Clause Clear License
      •124•536•98•13•Updated Nov 27, 2025Nov 27, 2025

    • sleap-nn

      Public
      Neural network backend for training and inference for animal pose estimation.
      Python
      •
      GNU General Public License v3.0
      •7•13•17•5•Updated Nov 26, 2025Nov 26, 2025

    • lablink-template

      Public template
      Documentation for LabLink template repo.
      Shell
      •
      BSD 2-Clause "Simplified" License
      •0•1•5•2•Updated Nov 25, 2025Nov 25, 2025

    • sleap-rtc

      Public
      Remote backend for training and inference for animal pose estimation.
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 25, 2025Nov 25, 2025

    • mouse-reach-mjx-neurips

      Public
      High-throughput imitation learning for a musculoskeletal mouse forelimb model in JAX-accelerated MuJoCo.
      Jupyter Notebook
      •0•1•0•0•Updated Nov 25, 2025Nov 25, 2025

    • vnl-playground

      Public
      Virtual Neuro Lab (VNL). Deep Reinforcement Learning Environments in JAX with MuJoCo MJX/Playground
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•4•1•Updated Nov 25, 2025Nov 25, 2025

    • lablink-paper-figures

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Nov 25, 2025Nov 25, 2025

    • sleap-roots

      Public
      Analysis tools for SLEAP-based plant root phenotyping.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•13•20•0•Updated Nov 25, 2025Nov 25, 2025

    • track-mjx

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•7•41•1•Updated Nov 25, 2025Nov 25, 2025

    • dreem-plots

      Public
      Plotting code for DREEM
      Jupyter Notebook
      •0•0•0•0•Updated Nov 25, 2025Nov 25, 2025

    • dreem

      Public
      DREEM Relates Every Entities' Motion (DREEM). Global Tracking Transformers for biological multi-object tracking.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•13•17•4•Updated Nov 24, 2025Nov 24, 2025

    • sleap-io

      Public
      Standalone utilities for SLEAP pose tracking data.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •15•20•9•0•Updated Nov 16, 2025Nov 16, 2025

    • spacecage-undistort

      Public
      Python
      •1•0•0•1•Updated Nov 13, 2025Nov 13, 2025

    • webRTC-connect

      Public
      Python
      •
      MIT License
      •0•0•1•0•Updated Nov 10, 2025Nov 10, 2025

    • mimic-mjx-supp-videos

      Public
      supplement videos plotting notebook
      Jupyter Notebook
      •0•0•0•0•Updated Nov 10, 2025Nov 10, 2025

    • sleap-cuda-container

      Public
      Dockerfiles and test data for a portable SLEAP container with GPU acceleration and various connections.
      Python
      •
      BSD 2-Clause "Simplified" License
      •2•0•7•4•Updated Nov 7, 2025Nov 7, 2025

    • sleap-roots-analyze

      Public
      Standard trait analysis for traits from sleap-roots.
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•13•1•Updated Nov 7, 2025Nov 7, 2025

    • gemini-salk

      Public
      Gemini is a modern LaTex beamerposter theme 🖼 theme match for Salk Institute of Biological Studies
      TeX
      •
      MIT License
      •283•0•0•0•Updated Nov 5, 2025Nov 5, 2025

    • lab-website

      Public
      Website for Talmo Pereira's lab (https://talmolab.org)
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Nov 1, 2025Nov 1, 2025

    • sleap-lablink

      Public
      Official deployment of SLEAP using LabLink
      HCL
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated Oct 12, 2025Oct 12, 2025

    • sleap-mot

      Public
      Standalone multi-object tracking.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•7•2•Updated Oct 8, 2025Oct 8, 2025

    • webRTC-client

      Public
      webRTC client repo for pip package
      Python
      •
      MIT License
      •0•0•0•1•Updated Oct 6, 2025Oct 6, 2025

    • sleap-lablink-legacy

      Public
      Infrastructure for running SLEAP on remote machines via virtual machine allocation and Google Chrome Remote Desktop, managed with Terraform.
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated Sep 30, 2025Sep 30, 2025

    • sleap-core-docs

      Public
      Fork to migrate to mkdocs for SLEAP documentation
      Python
      •
      BSD 3-Clause Clear License
      •124•0•0•0•Updated Sep 30, 2025Sep 30, 2025

    • sleap-legacy-docs

      Public
      Fork to preserve and maintain documentation for older SLEAP versions (<=1.4.1).
      Python
      •
      Other
      •124•0•0•0•Updated Sep 22, 2025Sep 22, 2025

    • sleap-roots-predict

      Public
      A lightweight CLI and library that uses sleap-nn for prediction and produces artifacts in the format expected by sleap-roots pipelines. Intended to interoperate with the sleap-roots model registry.
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•1•Updated Sep 18, 2025Sep 18, 2025

    • movenet-dance-demo

      Public
      A real-time demo running on webcam feed that guides subject to move to match pre-defined target poses.
      computer-visiondeep-learningdancepose-estimationmovenet
      PureBasic
      •
      MIT License
      •0•2•0•0•Updated Sep 3, 2025Sep 3, 2025

    • labelroi

      Public
      Python
      •0•0•0•0•Updated Aug 6, 2025Aug 6, 2025