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    285 repositories

    • gpt-semantic-search

      Public
      Semantic search for Janelia resources using GPT models
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•3•2•0•Updated Jul 10, 2025Jul 10, 2025

    • fileglancer

      Public
      Browse, share, and publish data in the Janelia file system
      TypeScript
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•5•Updated Jul 9, 2025Jul 9, 2025

    • videoAnnotation

      Public
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•1•Updated Jul 9, 2025Jul 9, 2025

    • dis-utilities

      Public
      Utilities for Data and Information Services
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•14•1•Updated Jul 9, 2025Jul 9, 2025

    • jrc_common

      Public
      Library of common utility functions for Python
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 9, 2025Jul 9, 2025

    • diff-rsync-o

      Public
      Linux scripts for transferring data from rig computers
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Jul 9, 2025Jul 9, 2025

    • doi_common

      Public
      Library of common DOI-related functions for Python
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 9, 2025Jul 9, 2025

    • EM_recon_pipeline

      Public
      Pipeline scripts and tools for reconstructing Electron Microscopy volumes.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•3•0•2•Updated Jul 9, 2025Jul 9, 2025

    • fileglancer-central

      Public
      Central metadata server for Fileglancer deployments
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 8, 2025Jul 8, 2025

    • easifish

      Public
      Nextflow
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 8, 2025Jul 8, 2025

    • FunkeAnnotation

      Public
      Small tool to annotate images
      Java
      •0•1•0•1•Updated Jul 8, 2025Jul 8, 2025

    • containers

      Public
      Containers for workflow plugins
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 8, 2025Jul 8, 2025

    • BigStitcher-Spark

      Public
      Running compute-intense parts of BigStitcher distributed
      Java
      •
      BSD 2-Clause "Simplified" License
      •13•26•15•3•Updated Jul 8, 2025Jul 8, 2025

    • nf-BigStitcher-Spark

      Public
      Run BigStitcher-Spark using Nextflow
      Nextflow
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Jul 8, 2025Jul 8, 2025

    • n5-zstandard

      Public
      Zstandard Compression for N5
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •1•1•0•0•Updated Jul 7, 2025Jul 7, 2025

    • neuronbridge-precompute

      Public
      Utilities for indexing and transferring of NeuronBridge-related files
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 7, 2025Jul 7, 2025

    • colormipsearch

      Public
      Distributed Color Depth MIP Search
      neurosciencesearch-algorithmneuron
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •1•2•0•2•Updated Jul 7, 2025Jul 7, 2025

    • pydantic-ome-ngff

      Public
      Pydantic models for OME-NGFF
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•24•6•1•Updated Jul 7, 2025Jul 7, 2025

    • phase-change

      Public
      archive data to cold storage
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jul 7, 2025Jul 7, 2025

    • nextflow-modules

      Public
      Nextflow modules for use with nf-core tooling
      Nextflow
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Jul 3, 2025Jul 3, 2025

    • ssh_cluster_tunnel_for_vscode

      Public
      SSH cluster tunnel configuration for VS Code
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•2•Updated Jul 2, 2025Jul 2, 2025

    • tmt

      Public
      A toolbox of Matlab functions useful for data analysis, especially of electrophysiology data.
      MATLAB
      •1•2•0•0•Updated Jul 2, 2025Jul 2, 2025

    • pocaduck

      Public
      PoCADuck is a library for efficiently storing and retrieving vast numbers of point clouds associated with segmentation labels.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•0•0•Updated Jul 2, 2025Jul 2, 2025

    • hortacloud

      Public
      HortaCloud - 3D annotation platform for large microscopy data
      awsneurosciencescientific-computingneuronsannotation-tooljanelia
      JavaScript
      •
      BSD 3-Clause "New" or "Revised" License
      •1•10•46•0•Updated Jul 1, 2025Jul 1, 2025

    • fileglancer-hub

      Public
      Jupyterhub launcher configuration for the fileglancer application
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•1•Updated Jul 1, 2025Jul 1, 2025

    • ShroffCelegansModels.jl

      Public
      Julia
      •
      MIT License
      •1•3•0•40•Updated Jun 26, 2025Jun 26, 2025

    • neuronbridge-aligners

      Public
      Containerized Brain/VNC aligners for NeuronBridge
      ImageJ Macro
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Jun 25, 2025Jun 25, 2025

    • bigstream

      Public
      Tools for distributed alignment of massive images
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •21•84•13•3•Updated Jun 25, 2025Jun 25, 2025

    • jacs-dashboard

      Public
      Dashboard interface for the JACSv2 services ecosystem.
      JavaScript
      •
      MIT License
      •0•0•4•1•Updated Jun 24, 2025Jun 24, 2025

    • Groundswell

      Public
      A Matlab application for browsing and analysis of electrophysiology data.
      MATLAB
      •2•0•0•0•Updated Jun 23, 2025Jun 23, 2025