Repositories list

• jacs-compute

  Public
  JAnelia Compute Services (JACS)

  distributed-computingneuroimagingcluster-computing

  Java

  •

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

  •0•1•0•0•Updated Oct 2, 2024Oct 2, 2024

• jacs-storage

  Public
  JADE file storage services

  Java

  •

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

  •0•0•0•1•Updated Oct 2, 2024Oct 2, 2024

• EM_recon_pipeline

  Public
  Pipeline scripts and tools for reconstructing Electron Microscopy volumes.

  Python

  •

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

  •2•3•0•2•Updated Oct 2, 2024Oct 2, 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•3•Updated Oct 2, 2024Oct 2, 2024

• zarrcade

  Public
  Jupyter Notebook

  •

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

  •0•0•0•0•Updated Oct 2, 2024Oct 2, 2024

• neuronbridge

  Public
  EM/LM neuron search

  neuroscienceneuroimagingneurons+ 3drosophilajaneliaaws

  JavaScript

  •

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

  •1•4•0•0•Updated Oct 1, 2024Oct 1, 2024

• neuronbridge-data

  Public
  Versioned NeuronBridge data files deployed to S3 buckets

  Shell

  •

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

  •0•0•0•0•Updated Oct 1, 2024Oct 1, 2024

• BigStitcher-Spark

  Public
  Running compute-intense parts of BigStitcher distributed

  Java

  •

  BSD 2-Clause "Simplified" License

  •10•17•14•1•Updated Oct 1, 2024Oct 1, 2024

• jeiss_fibsem_labview_control

  Public
  LabVIEW

  •

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

  •0•2•6•0•Updated Oct 1, 2024Oct 1, 2024

• ShroffCelegansModels.jl

  Public
  Julia

  •

  MIT License

  •0•2•0•32•Updated Oct 1, 2024Oct 1, 2024

• videoAnnotation

  Public
  JavaScript

  •

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

  •0•0•0•0•Updated Sep 30, 2024Sep 30, 2024

• videoAnnotation_backend

  Public
  Python

  •

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

  •0•0•0•0•Updated Sep 30, 2024Sep 30, 2024

• doi_common

  Public
  Library of common DOI-related functions for Python

  Python

  •

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

  •0•0•1•0•Updated Sep 30, 2024Sep 30, 2024

• janelia-unity-toolkit

  Public
  Packages for the Unity game engine, emphasizing animal studies in VR.

  C#

  •

  Other

  •10•15•5•2•Updated Sep 30, 2024Sep 30, 2024

• dis-utilities

  Public
  Utilities for Data and Information Services

  JavaScript

  •

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

  •0•0•27•0•Updated Sep 30, 2024Sep 30, 2024

• pydantic-ome-ngff

  Public
  Pydantic models for OME-NGFF

  Python

  •

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

  •3•20•6•1•Updated Sep 30, 2024Sep 30, 2024

• SongExplorer

  Public
  deep learning for acoustic signals

  Python

  •

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

  •5•22•5•1•Updated Sep 30, 2024Sep 30, 2024

• neuronbridge-services

  Public
  AWS Services for NeuronBridge

  JavaScript

  •

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

  •1•2•0•18•Updated Sep 27, 2024Sep 27, 2024

• G4_Display_Tools

  Public
  Collection of tools for the G4 LED arena displays.

  MATLAB

  •

  Creative Commons Attribution 4.0 International

  •2•2•11•0•Updated Sep 26, 2024Sep 26, 2024

• PyWaveSurfer

  Public
  PyWaveSurfer is a Python package for reading WaveSurfer data files in Python.

  Python

  •6•9•1•7•Updated Sep 26, 2024Sep 26, 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 Sep 24, 2024Sep 24, 2024

• hortacloud-website

  Public
  Documentation website for HortaCloud

  neurosciencejaneliahortacloud

  HTML

  •

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

  •0•2•0•3•Updated Sep 24, 2024Sep 24, 2024

• tethered-fly-pipeline

  Public
  Nextflow pipeline for processing tethered fly videos using APT

  neurosciencejanelia

  Nextflow

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Sep 22, 2024Sep 22, 2024

• hortacloud

  Public
  HortaCloud - 3D annotation platform for large microscopy data

  awsneurosciencescientific-computing+ 3neuronsannotation-tooljanelia

  JavaScript

  •

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

  •1•10•38•0•Updated Sep 21, 2024Sep 21, 2024

• x2s3

  Public
  S3 Proxy

  Python

  •0•1•0•1•Updated Sep 20, 2024Sep 20, 2024

• colormipsearch

  Public
  Distributed Color Depth MIP Search

  neurosciencesearch-algorithmneuron

  Java

  •

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

  •1•0•0•1•Updated Sep 20, 2024Sep 20, 2024

• Zebrafish_96well_segmentation_mesure_FPC

  Public
  Zebrafish 2D auto-segmentation & FPC auto-mesurement

  Java

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Sep 17, 2024Sep 17, 2024

• repp

  Public
  Repository-based plasmid design

  Go

  •

  GNU General Public License v2.0

  •4•0•0•0•Updated Sep 13, 2024Sep 13, 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

  •16•1•16•2•Updated Sep 12, 2024Sep 12, 2024

• n5-tools-dask

  Public
  Dask-based utilities to process N5 images

  Python

  •

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

  •0•1•0•0•Updated Sep 11, 2024Sep 11, 2024