Repositories list

• webknossos-libs

  Public
  Python API and CLI tools for working with WEBKNOSSOS datasets, annotations and server interactions. Includes converter to OME-Zarr.

  hacktoberfestwebknossosvolume-em+ 1

  hacktoberfestwebknossosvolume-emome-zarr-converter

  Python

  •1414 forks•2828 stars•6060 issues•55 pull requests•Updated Apr 22, 2026Apr 22, 2026

• webknossos

  Public

  scalableminds/webknossos’s past year of commit activity
  Visualize, share and annotate your large 3D images online

  neurobiologyreconstructionconnectomics+ 4

  neurobiologyreconstructionconnectomicsemmicroscopyhacktoberfestmicroscopy-images

  TypeScript

  •

  GNU Affero General Public License v3.0

  •3434 forks•173173 stars•302302 issues•1414 pull requests•Updated Apr 22, 2026Apr 22, 2026

• pims

  Public

  scalableminds/pims’s past year of commit activity
  Python Image Sequence: Load video and sequential images in many formats with a simple, consistent interface.

  Python

  •

  Other

  •7070 forks•00 stars•00 issues•00 pull requests•Updated Mar 31, 2026Mar 31, 2026

• ome-zarr-fiji-java

  Public

  scalableminds/ome-zarr-fiji-java’s past year of commit activity
  A drag-and-drop gateway of OME-Zarrs into Fiji.

  Java

  •

  BSD 2-Clause "Simplified" License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Mar 25, 2026Mar 25, 2026

• LightGlue

  Public
  LightGlue fork including pre-trained weights, installable as pip package.

  Python

  •

  Apache License 2.0

  •516516 forks•00 stars•00 issues•00 pull requests•Updated Mar 19, 2026Mar 19, 2026

• build-wheels

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 19, 2026Mar 19, 2026

• accelerated_features

  Public
  Fork of the original XFeat repository to be built as self-contained Python package

  Jupyter Notebook

  •

  Apache License 2.0

  •208208 forks•00 stars•00 issues•11 pull request•Updated Mar 3, 2026Mar 3, 2026

• distance-transform

  Public
  Distance transforms for ndarrays

  JavaScript

  •

  MIT License

  •44 forks•00 stars•00 issues•00 pull requests•Updated Feb 26, 2026Feb 26, 2026

• zarr-matlab

  Public
  MATLAB

  •

  MIT License

  •00 forks•55 stars•00 issues•00 pull requests•Updated Jan 27, 2026Jan 27, 2026

• s3fs

  Public
  S3 Filesystem

  Python

  •

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

  •290290 forks•00 stars•00 issues•00 pull requests•Updated Jan 21, 2026Jan 21, 2026

• dockerfiles

  Public
  Docker images used within scalableminds :whale:

  Python

  •

  MIT License

  •11 fork•11 star•33 issues•11 pull request•Updated Jan 13, 2026Jan 13, 2026

• slurm-packages

  Public
  Slurm packages and dockerfiles.

  Dockerfile

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 4, 2025Dec 4, 2025

• zarrita

  Public archive
  Python

  •

  MIT License

  •66 forks•1919 stars•11 issue•11 pull request•Updated Nov 12, 2025Nov 12, 2025

• webknossos-wrap

  Public
  Efficient 3D volume storage format for webKnossos and analyses

  Rust

  •

  MIT License

  •33 forks•99 stars•99 issues•00 pull requests•Updated Oct 21, 2025Oct 21, 2025

• prometheus-slurm-exporter

  Public
  Prometheus exporter for performance metrics from Slurm.

  Go

  •

  GNU General Public License v3.0

  •181181 forks•00 stars•00 issues•00 pull requests•Updated Jul 22, 2025Jul 22, 2025

• fossildb

  Public
  Versioned Key-Value Store with RocksDB backend and gRPC API

  Scala

  •

  MIT License

  •00 forks•1414 stars•44 issues•00 pull requests•Updated Jul 21, 2025Jul 21, 2025

• mkdocs-video

  Public
  MkDocs Video plugin

  Python

  •

  MIT License

  •1414 forks•11 star•00 issues•00 pull requests•Updated Jul 8, 2025Jul 8, 2025

• zarr-python

  Public
  An implementation of chunked, compressed, N-dimensional arrays for Python.

  Python

  •

  MIT License

  •399399 forks•00 stars•00 issues•00 pull requests•Updated Jun 22, 2025Jun 22, 2025

• n5-universe

  Public
  Functionality shared across all n5

  Java

  •

  BSD 2-Clause "Simplified" License

  •66 forks•00 stars•00 issues•00 pull requests•Updated May 20, 2025May 20, 2025

• numcodecs

  Public
  A Python package providing buffer compression and transformation codecs for use in data storage and communication applications.

  Python

  •

  MIT License

  •111111 forks•00 stars•00 issues•00 pull requests•Updated Apr 22, 2025Apr 22, 2025

• zarr-java2

  Public
  Java implementation of the Zarr Specification

  Java

  •

  MIT License

  •1919 forks•11 star•00 issues•00 pull requests•Updated Apr 22, 2025Apr 22, 2025

• zarr.webknossos.org

  Public
  Gallery of OME-Zarr datasets from WEBKNOSSOS

  JavaScript

  •

  MIT License

  •22 forks•00 stars•00 issues•00 pull requests•Updated Apr 9, 2025Apr 9, 2025

• redux-saga

  Public
  An alternative side effect model for Redux apps

  JavaScript

  •

  MIT License

  •1.9k1.9k forks•00 stars•00 issues•00 pull requests•Updated Feb 26, 2025Feb 26, 2025

• siibra-matlab

  Public
  Matlab interface to the siibra toolsuite

  MATLAB

  •

  Apache License 2.0

  •22 forks•00 stars•00 issues•00 pull requests•Updated Dec 16, 2024Dec 16, 2024

• n5-zarr

  Public
  Zarr filesystem backend for N5

  Java

  •

  BSD 2-Clause "Simplified" License

  •1818 forks•00 stars•00 issues•00 pull requests•Updated Nov 21, 2024Nov 21, 2024

• blosc-java

  Public
  Java

  •

  MIT License

  •00 forks•11 star•11 issue•00 pull requests•Updated Nov 20, 2024Nov 20, 2024

• n5-blosc

  Public
  Blosc compression for N5

  Java

  •

  BSD 2-Clause "Simplified" License

  •66 forks•00 stars•00 issues•00 pull requests•Updated Nov 20, 2024Nov 20, 2024

• wknml

  Public archive
  Python library for working with webKnossos NML files

  hacktoberfest

  hacktoberfest

  Python

  •

  MIT License

  •33 forks•00 stars•33 issues•00 pull requests•Updated Aug 7, 2024Aug 7, 2024

• remarkable

  Public
  Markdown parser, done right. Commonmark support, extensions, syntax plugins, high speed - all in one. Gulp and metalsmith plugins available. Used by Facebook, D…

  JavaScript

  •

  MIT License

  •375375 forks•00 stars•00 issues•00 pull requests•Updated May 17, 2024May 17, 2024

• prop-types

  Public
  Runtime type checking for React props and similar objects

  JavaScript

  •

  MIT License

  •348348 forks•00 stars•00 issues•11 pull request•Updated May 17, 2024May 17, 2024