Repositories list

• jacs-storage

  Public
  JADE file storage services

  Java

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•1•Updated Jan 2, 2025Jan 2, 2025

• jacs-model

  Public
  JACS Domain Model and DAOs

  Java

  •

  BSD 3-Clause "New" or "Revised" License

  •0•1•0•0•Updated Jan 2, 2025Jan 2, 2025

• jacs-compute

  Public
  JAnelia Compute Services (JACS)

  distributed-computingneuroimagingcluster-computing

  Java

  •

  BSD 3-Clause "New" or "Revised" License

  •0•1•0•0•Updated Dec 29, 2024Dec 29, 2024

• JaneliaDataStandards

  Public
  A pilot experiment to dissminate information about Janelia's biomaging data formats.

  HTML

  •

  BSD 3-Clause "New" or "Revised" License

  •2•10•2•4•Updated Dec 24, 2024Dec 24, 2024

• bigstream

  Public
  Tools for distributed alignment of massive images

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •21•78•11•2•Updated Dec 24, 2024Dec 24, 2024

• 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 Dec 24, 2024Dec 24, 2024

• EM_recon_pipeline

  Public
  Pipeline scripts and tools for reconstructing Electron Microscopy volumes.

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •3•3•0•3•Updated Dec 24, 2024Dec 24, 2024

• pydantic-ome-ngff

  Public
  Pydantic models for OME-NGFF

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •3•22•6•1•Updated Dec 23, 2024Dec 23, 2024

• dis-utilities

  Public
  Utilities for Data and Information Services

  JavaScript

  •

  BSD 3-Clause "New" or "Revised" License

  •1•0•11•1•Updated Dec 23, 2024Dec 23, 2024

• SongExplorer

  Public
  deep learning for acoustic signals

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •5•23•5•1•Updated Dec 23, 2024Dec 23, 2024

• nnmf

  Public
  Non-negative matrix factorization of fluorescent time series

  MATLAB

  •

  BSD 3-Clause "New" or "Revised" License

  •2•0•0•0•Updated Dec 20, 2024Dec 20, 2024

• G4_Display_Tools

  Public
  Collection of tools for the G4 LED arena displays.

  MATLAB

  •

  Creative Commons Attribution 4.0 International

  •3•2•10•0•Updated Dec 20, 2024Dec 20, 2024

• colormipsearch

  Public
  Distributed Color Depth MIP Search

  neurosciencesearch-algorithmneuron

  Java

  •

  BSD 3-Clause "New" or "Revised" License

  •1•1•0•2•Updated Dec 19, 2024Dec 19, 2024

• ossi-website

  Public
  Website showcasing Janelia Open Science Software Intiative (OSSI) supported software projects and other software developed at Janelia.

  Astro

  •

  BSD 3-Clause "New" or "Revised" License

  •17•1•16•2•Updated Dec 19, 2024Dec 19, 2024

• n5-zstandard

  Public
  Zstandard Compression for N5

  Java

  •

  BSD 3-Clause "New" or "Revised" License

  •0•1•0•0•Updated Dec 18, 2024Dec 18, 2024

• doi_common

  Public
  Library of common DOI-related functions for Python

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Dec 18, 2024Dec 18, 2024

• jacs-cm

  Public
  JACS Configuration Management

  janeliajanelia-workstationmouselight+ 4dockerdevopsdocker-swarmswarm

  XSLT

  •

  Other

  •3•8•17•2•Updated Dec 18, 2024Dec 18, 2024

• jacs-messaging

  Public
  Provides rabbitmq wrappers and broker base implementation for Neuron shared workspaces in Horta/LVV

  Java

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Dec 18, 2024Dec 18, 2024

• RubinFlyDiscoSettings

  Public
  Rubin Lab settings folder for FlyDiscoAnalysis

  Shell

  •0•0•0•0•Updated Dec 18, 2024Dec 18, 2024

• transfero

  Public
  Python scripts for transferring data from rig computers

  Python

  •0•0•0•0•Updated Dec 17, 2024Dec 17, 2024

• jacs-tools

  Public
  Containerized image processing tools for JACS

  ImageJ Macro

  •

  Other

  •0•1•0•0•Updated Dec 16, 2024Dec 16, 2024

• hortacloud-website

  Public
  Documentation website for HortaCloud

  neurosciencejaneliahortacloud

  HTML

  •

  BSD 3-Clause "New" or "Revised" License

  •0•2•0•3•Updated Dec 16, 2024Dec 16, 2024

• n5-spark

  Public
  Spark-driven processing utilities for N5 datasets.

  Java

  •

  BSD 2-Clause "Simplified" License

  •7•0•0•0•Updated Dec 16, 2024Dec 16, 2024

• VVDViewer

  Public
  3D/4D volumetric rendering of microscopy data

  renderingneurosciencemicroscopy+ 1vvd-viewer

  C++

  •

  BSD 3-Clause "New" or "Revised" License

  •5•21•3•1•Updated Dec 14, 2024Dec 14, 2024

• exllsm-circuit-reconstruction

  Public
  Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery

  neurosciencemicroscopylightsheet+ 5nextflow-pipelinesmachine-learningpipelineimage-processingsegmentation

  Nextflow

  •

  BSD 3-Clause "New" or "Revised" License

  •1•13•2•0•Updated Dec 13, 2024Dec 13, 2024

• ShroffCelegansModels.jl

  Public
  Julia

  •

  MIT License

  •0•2•0•35•Updated Dec 13, 2024Dec 13, 2024

• neuronbridge

  Public
  EM/LM neuron search

  neuroscienceneuroimagingneurons+ 3drosophilajaneliaaws

  JavaScript

  •

  BSD 3-Clause "New" or "Revised" License

  •1•4•0•9•Updated Dec 12, 2024Dec 12, 2024

• tpt

  Public
  A tentative Python toolbox

  Python

  •0•1•0•0•Updated Dec 10, 2024Dec 10, 2024

• neuronbridge-aligners

  Public
  Containerized Brain/VNC aligners for NeuronBridge

  ImageJ Macro

  •

  BSD 3-Clause "New" or "Revised" License

  •0•1•0•0•Updated Dec 10, 2024Dec 10, 2024

• videoAnnotation_backend

  Public
  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Dec 9, 2024Dec 9, 2024