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@talmolab Talmo Lab at the Salk Institute

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    56 repositories

    • sleap-nn

      Public
      Neural network backend for training and inference for animal pose estimation.
      Python
      •
      GNU General Public License v3.0
      •0•6•22•5•Updated Apr 23, 2025Apr 23, 2025

    • sleap-roots

      Public
      Analysis tools for SLEAP-based plant root phenotyping.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•11•18•5•Updated Apr 23, 2025Apr 23, 2025

    • lablink

      Public
      Shell
      •
      BSD 2-Clause "Simplified" License
      •0•0•26•3•Updated Apr 22, 2025Apr 22, 2025

    • webRTC-client

      Public
      webRTC client repo for pip package
      Python
      •
      MIT License
      •0•0•0•1•Updated Apr 22, 2025Apr 22, 2025

    • sleap

      Public
      A deep learning framework for multi-animal pose tracking.
      deep-learningbehavior-analysisleappose-estimationanimal-trackinganimal-pose-estimationsleap
      Python
      •
      Other
      •106•473•61•28•Updated Apr 21, 2025Apr 21, 2025

    • sleap-io

      Public
      Standalone utilities for SLEAP pose tracking data.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •10•16•14•4•Updated Apr 18, 2025Apr 18, 2025

    • standard-trait-analysis

      Public
      Data cleanup, exploratory data analysis, and dimensionality reduction of standard phenotypic traits with metadata output from Bloom and sleap-roots-pipeline.
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•1•Updated Apr 16, 2025Apr 16, 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
      •1•7•12•7•Updated Apr 16, 2025Apr 16, 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•11•35•0•Updated Apr 14, 2025Apr 14, 2025

    • webRTC-connect

      Public
      Python
      •
      MIT License
      •0•0•1•0•Updated Apr 8, 2025Apr 8, 2025

    • sleap-mot

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

    • sleap-roots-pipeline

      Public
      Container orchestration for sleap-roots inference pipeline.
      Shell
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated Mar 27, 2025Mar 27, 2025

    • lab-website

      Public
      Website for Talmo Pereira's lab (https://talmolab.org)
      SCSS
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Mar 27, 2025Mar 27, 2025

    • vnl-ray

      Public
      MuJoCo fruit fly body model and reinforcement learning tasks
      Python
      •
      Apache License 2.0
      •12•4•0•0•Updated Mar 25, 2025Mar 25, 2025

    • mujoco_playground

      Public
      An open-source library for GPU-accelerated robot learning and sim-to-real transfer.
      Jupyter Notebook
      •
      Apache License 2.0
      •114•0•0•0•Updated Mar 12, 2025Mar 12, 2025

    • cosyne_vm

      Public
      This repository stores the scripts that are locally available on every VM instance we spin up for the COSYNE 2024 conference.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Mar 5, 2025Mar 5, 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
      •1•0•1•3•Updated Feb 25, 2025Feb 25, 2025

    • internal-dockerfiles

      Public
      dockerfiles for talmo
      Dockerfile
      •1•1•0•2•Updated Feb 25, 2025Feb 25, 2025

    • sleap-wandb-training

      Public
      Training using the SLEAP API and wandb integration
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 29, 2025Jan 29, 2025

    • Brax-Tracking

      Public
      Brax Rodent Run training script
      Jupyter Notebook
      •2•0•0•0•Updated Oct 25, 2024Oct 25, 2024

    • sleap-deps

      Public
      Packages necessary for sleap build maintained by the SLEAP team.
      Shell
      •
      Apache License 2.0
      •0•0•0•0•Updated Oct 22, 2024Oct 22, 2024

    • JABS-behavior-classifier

      Public
      Behavior Classifier Component from the Jax Animal Behavior System
      Python
      •
      Other
      •2•0•0•0•Updated Oct 15, 2024Oct 15, 2024

    • sleap-anipose

      Public
      SLEAP to Anipose triangulation pipeline for 3D multi-animal pose tracking.
      Python
      •
      GNU General Public License v3.0
      •1•19•13•0•Updated Oct 11, 2024Oct 11, 2024

    • streamlit

      Public
      Create web apps using the Python `streamlit` library
      Python
      •0•0•0•0•Updated Oct 4, 2024Oct 4, 2024

    • janky-charuco-calibrator

      Public
      Jankily calibrating charucoly
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 24, 2024Aug 24, 2024

    • VNL-Brax-Imitation

      Public
      VNL Implementation of Rodent Imitation Learning
      Jupyter Notebook
      •1•3•0•0•Updated Aug 19, 2024Aug 19, 2024

    • sleap-tutorial-data

      Public
      Data for SLEAP tutorials.
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Aug 19, 2024Aug 19, 2024

    • multi-animal-dannce

      Public
      Jupyter Notebook
      •
      MIT License
      •3•0•0•0•Updated Jul 23, 2024Jul 23, 2024

    • conda_packages

      Public
      Shell
      •
      Apache License 2.0
      •0•2•0•1•Updated Jul 15, 2024Jul 15, 2024

    • cajal2024-tutorial-data

      Public
      Data for CAJAL 2024 QABVR tutorial
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jun 7, 2024Jun 7, 2024