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@talmolab Talmo Lab at the Salk Institute

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    88 repositories

    • sleap-roots

      Public
      Analysis tools for SLEAP-based plant root phenotyping.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•13•69•1•Updated May 22, 2026May 22, 2026

    • sleap

      Public
      A deep learning framework for multi-animal pose tracking.
      deep-learningbehavior-analysisleap
      deep-learningbehavior-analysisleappose-estimationanimal-trackinganimal-pose-estimationsleap
      Python
      •
      BSD 3-Clause Clear License
      •128•587•12•9•Updated May 22, 2026May 22, 2026

    • lablink

      Public
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•2•14•3•Updated May 22, 2026May 22, 2026

    • lablink-template

      Public template
      Documentation for LabLink template repo.
      Shell
      •
      BSD 2-Clause "Simplified" License
      •0•0•5•1•Updated May 22, 2026May 22, 2026

    • sleap-io

      Public
      Standalone utilities for SLEAP pose tracking data.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •15•22•9•1•Updated May 22, 2026May 22, 2026

    • sleap-nn

      Public
      Neural network backend for training and inference for animal pose estimation.
      Python
      •
      GNU General Public License v3.0
      •8•20•46•33•Updated May 21, 2026May 21, 2026

    • 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
      •1•8•12•2•Updated May 21, 2026May 21, 2026

    • track-mjx

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •2•16•36•2•Updated May 20, 2026May 20, 2026

    • stac-keypoints-web

      Public
      Web interface for stac-mjx
      TypeScript
      •1•0•2•0•Updated May 19, 2026May 19, 2026

    • sleap-rtc

      Public
      Remote backend for training and inference for animal pose estimation.
      Python
      •
      MIT License
      •0•1•0•2•Updated May 12, 2026May 12, 2026

    • vibes

      Public
      Vibed tools and experiments.
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•2•Updated May 7, 2026May 7, 2026

    • sleap-roots-analyze

      Public
      Standard trait analysis for traits from sleap-roots.
      Python
      •
      GNU General Public License v3.0
      •0•0•75•0•Updated May 5, 2026May 5, 2026

    • stac-mjx

      Public
      Implementation of STAC using MJX for GPU acceleration. Part of VNL project.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •6•25•35•3•Updated May 5, 2026May 5, 2026

    • lablink-paper-figures

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Apr 27, 2026Apr 27, 2026

    • webRTC-connect

      Public
      Python
      •
      MIT License
      •0•0•1•0•Updated Apr 21, 2026Apr 21, 2026

    • sleap-io.js

      Public
      TypeScript
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•10•0•Updated Apr 13, 2026Apr 13, 2026

    • Space-SLEAP

      Public
      A repo for scripts associated with the Space SLEAP project
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 13, 2026Apr 13, 2026

    • emdee

      Public
      A fast, minimal, cross-platform markdown viewer. Opens .md files natively on macOS, Windows, and Linux.
      JavaScript
      •
      MIT License
      •0•0•1•0•Updated Apr 7, 2026Apr 7, 2026

    • sam-track

      Public
      Track objects in videos using SAM3
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•4•0•2•Updated Apr 6, 2026Apr 6, 2026

    • sleap-mot

      Public
      Standalone multi-object tracking.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•8•3•Updated Mar 26, 2026Mar 26, 2026

    • 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•17•18•2•Updated Mar 23, 2026Mar 23, 2026

    • 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 Mar 17, 2026Mar 17, 2026

    • dreem-system-animation

      Public
      Animated system overview of DREEM, built with Remotion
      TypeScript
      •0•0•0•0•Updated Feb 27, 2026Feb 27, 2026

    • IAMReX

      Public
      IAMReX documentation
      C++
      •
      Other
      •17•0•0•0•Updated Feb 26, 2026Feb 26, 2026

    • mosquito-cfd

      Public
      CFD simulations of mosquito flight aerodynamics using IAMReX
      Python
      •0•0•1•0•Updated Feb 26, 2026Feb 26, 2026

    • dreem-plots

      Public
      Plotting code for DREEM
      Jupyter Notebook
      •0•0•0•0•Updated Feb 26, 2026Feb 26, 2026

    • spacecage-undistort

      Public
      Python
      •1•0•0•0•Updated Feb 18, 2026Feb 18, 2026

    • mujoco

      Public
      Multi-Joint dynamics with Contact. A general purpose physics simulator.
      C++
      •
      Apache License 2.0
      •1.5k•0•0•0•Updated Feb 12, 2026Feb 12, 2026

    • internal-dockerfiles

      Public
      dockerfiles for talmo
      Dockerfile
      •1•1•0•2•Updated Jan 10, 2026Jan 10, 2026

    • scratch-sync

      Public
      Sync private scratch/ folders across machines using Syncthing over Tailscale
      Python
      •0•0•0•0•Updated Jan 6, 2026Jan 6, 2026
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