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    106 repositories

    • render

      Public
      Render transformed image tiles
      Java
      •
      GNU General Public License v2.0
      •33•34•29•3•Updated Feb 27, 2025Feb 27, 2025

    • hot-knife

      Public
      Java
      •
      GNU General Public License v2.0
      •7•4•1•2•Updated Feb 26, 2025Feb 26, 2025

    • paintera

      Public
      Java
      •
      GNU General Public License v2.0
      •17•102•72•2•Updated Feb 25, 2025Feb 25, 2025

    • paintera-conversion-helper

      Public
      Script to assist conversion of n5 datasets to paintera-friendly formats
      Kotlin
      •4•1•10•1•Updated Feb 25, 2025Feb 25, 2025

    • n5-spark

      Public
      Spark-driven processing utilities for N5 datasets.
      Java
      •
      BSD 2-Clause "Simplified" License
      •7•3•7•0•Updated Feb 25, 2025Feb 25, 2025

    • label-utilities-spark

      Public
      Java
      •
      GNU General Public License v2.0
      •4•0•0•2•Updated Feb 25, 2025Feb 25, 2025

    • n5-universe

      Public
      Functionality shared across all n5
      Java
      •
      BSD 2-Clause "Simplified" License
      •5•1•6•2•Updated Feb 14, 2025Feb 14, 2025

    • n5-ij

      Public
      ImageJ convenience layer for N5
      fijihdf5fiji-pluginzarrn5ome-zarr-converter
      Java
      •
      BSD 2-Clause "Simplified" License
      •12•16•25•1•Updated Feb 13, 2025Feb 13, 2025

    • bigwarp

      Public
      A tool for manual pointwise deformable registration using bigdataviewer.
      Java
      •
      GNU General Public License v2.0
      •14•27•40•2•Updated Feb 11, 2025Feb 11, 2025

    • n5

      Public
      Not HDF5
      Java
      •
      BSD 2-Clause "Simplified" License
      •22•177•18•8•Updated Feb 5, 2025Feb 5, 2025

    • n5-aws-s3

      Public
      N5 library implementation using Amazon Web Services S3 backend.
      Java
      •
      BSD 2-Clause "Simplified" License
      •6•5•4•0•Updated Feb 4, 2025Feb 4, 2025

    • n5-zarr

      Public
      Zarr filesystem backend for N5
      Java
      •
      BSD 2-Clause "Simplified" License
      •16•15•8•7•Updated Jan 30, 2025Jan 30, 2025

    • n5-imglib2

      Public
      Java
      •
      BSD 2-Clause "Simplified" License
      •8•0•4•2•Updated Jan 21, 2025Jan 21, 2025

    • n5-google-cloud

      Public
      N5 library implementation using Google Cloud Storage backend.
      Java
      •
      BSD 2-Clause "Simplified" License
      •3•1•1•0•Updated Jan 20, 2025Jan 20, 2025

    • n5-viewer

      Public
      BigDataViewer-based tool for visualizing multichannel multiscale N5 datasets.
      Java
      •
      GNU General Public License v3.0
      •11•19•8•2•Updated Jan 20, 2025Jan 20, 2025

    • i2k2024-lazy-workshop

      Public
      I2K2024 workshop - Lazy Parallel Processing and Visualization of Large Data with ImgLib2, BigDataViewer, the N5-API, and Spark
      Jupyter Notebook
      •
      Apache License 2.0
      •0•3•0•0•Updated Dec 19, 2024Dec 19, 2024

    • n5-blosc

      Public
      Blosc compression for N5
      Java
      •
      BSD 2-Clause "Simplified" License
      •6•0•1•4•Updated Dec 18, 2024Dec 18, 2024

    • diffusion-experiments

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Nov 19, 2024Nov 19, 2024

    • cellmap-utils-kit

      Public
      Collection of various utilities for cellmap data including data preparation scripts, functions to extract info from attributes etc
      Python
      •
      MIT License
      •0•0•2•4•Updated Nov 18, 2024Nov 18, 2024

    • saalfx

      Public
      SaalFX: Extensions and tools for JavaFX, extracted from Paintera
      Kotlin
      •
      BSD 2-Clause "Simplified" License
      •2•1•0•0•Updated Nov 8, 2024Nov 8, 2024

    • fly-organelles

      Public
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Oct 16, 2024Oct 16, 2024

    • imglib2-label-multisets

      Public
      Implementation of label multisets as an ImgLib2 native type.
      Java
      •
      BSD 2-Clause "Simplified" License
      •2•0•5•0•Updated Oct 3, 2024Oct 3, 2024

    • n5-api-saving

      Public
      Shared resources for writing data and metadata with the n5-api
      Java
      •
      BSD 2-Clause "Simplified" License
      •0•0•3•0•Updated Oct 2, 2024Oct 2, 2024

    • n5-utils

      Public
      simple standalone BigDataViewer for multiple N5 (or HDF5) datasets
      Java
      •
      Other
      •18•8•13•0•Updated Sep 4, 2024Sep 4, 2024

    • z-spacing

      Public
      Estimate the correct positions of sections of three dimensional image data.
      Java
      •
      GNU General Public License v2.0
      •7•7•4•0•Updated Sep 3, 2024Sep 3, 2024

    • blog

      Public
      Saalfeld lab news and chatter
      Jupyter Notebook
      •0•4•1•0•Updated Jul 11, 2024Jul 11, 2024

    • template-building

      Public
      Scripts and code relating to building anatomical templates.
      Jupyter Notebook
      •
      BSD 2-Clause "Simplified" License
      •3•9•12•1•Updated Jun 26, 2024Jun 26, 2024

    • jitk-tps

      Public
      A java port of the ITK thin plate spline implementation.
      Java
      •
      Apache License 2.0
      •4•4•0•0•Updated Jun 17, 2024Jun 17, 2024

    • labelcomposer

      Public
      A small toolkit to design new label hierarchies composed from fundamental user annotation classes
      Python
      •
      MIT License
      •0•0•0•0•Updated May 13, 2024May 13, 2024

    • corditea

      Public
      Utility nodes for gunpowder
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•0•Updated May 3, 2024May 3, 2024