Alternatives and similar repositories for gala

Users that are interested in gala are comparing it to the libraries listed below

• jni / ray

  View on GitHub
  Automatic segmentation of electron microscopy volumes
  ☆30Oct 23, 2012Updated 13 years ago
• Rhoana / rhoana

  View on GitHub
  Rhoana - Dense Automated Neuron Annotation pipeline
  ☆29May 4, 2017Updated 8 years ago
• divelab / deepem3d

  View on GitHub
  ☆17Feb 3, 2018Updated 8 years ago
• ilastik / nature_methods_multicut_pipeline

  View on GitHub
  ☆22Jan 6, 2026Updated last month
• TuragaLab / malis

  View on GitHub
  MALIS structured loss function for supervised learning of segmentation and clustering
  ☆18Jun 24, 2023Updated 2 years ago
• urakubo / UNI-EM

  View on GitHub
  A unified environment for DNN-based automated segmentation of neuronal EM images
  ☆38Aug 28, 2024Updated last year
• seung-lab / DeepEM

  View on GitHub
  Deep Learning for EM Connectomics
  ☆16Aug 18, 2022Updated 3 years ago
• mhlabCodingTeam / SegEM

  View on GitHub
  Semi automated image analysis toolkit for Connectomics
  ☆12Aug 21, 2019Updated 6 years ago
• StructuralNeurobiologyLab / SyConn

  View on GitHub
  Toolkit for the generation and analysis of volume eletron microscopy based synaptic connectomes of brain tissue.
  ☆43Jul 28, 2025Updated 6 months ago
• billkarsh / Alignment_Projects

  View on GitHub
  Aligner for large scale serial section image data
  ☆16Jul 7, 2023Updated 2 years ago
• torms3 / Superhuman

  View on GitHub
  Superhuman Accuracy on the SNEMI3D Connectomics Challenge
  ☆14Feb 28, 2018Updated 7 years ago
• subeeshvasu / Awesome-Neuron-Segmentation-in-EM-Images

  View on GitHub
  A curated list of resources for 3D segmentation of neurites in EM images
  ☆56Mar 11, 2024Updated last year
• cremi / cremi_python

  View on GitHub
  Python scripts to read and write the CREMI hdf5 file format.
  ☆39Mar 21, 2023Updated 2 years ago
• sheetal158 / Image-Segmentation-by-Correlation-Clustering

  View on GitHub
  This is the project that we did for the Computer Vision course at Stony Brook University. It is a learning based method where the number …
  ☆10Dec 20, 2014Updated 11 years ago
• aschampion / diluvian

  View on GitHub
  Flood filling networks for segmenting electron microscopy of neural tissue
  ☆25Dec 26, 2022Updated 3 years ago
• knossos-project / knossos

  View on GitHub
  KNOSSOS is a software tool for the visualization and annotation of 3D image data and was developed for the rapid reconstruction of neural…
  ☆77Dec 2, 2025Updated 2 months ago
• BigNeuron / Code_and_Analysis_Tools

  View on GitHub
  ☆12Mar 25, 2022Updated 3 years ago
• alivcor / segraph

  View on GitHub
  The segraph library creates graphs from SLIC superpixels. It can be used for using CRF for image segmentation https://pypi.python.org/pyp…
  ☆11Oct 9, 2020Updated 5 years ago
• funkelab / lsd

  View on GitHub
  🌈
  ☆67Oct 10, 2025Updated 4 months ago
• constantinpape / cluster_tools

  View on GitHub
  Distributed segmentation for bio-image-analysis
  ☆41Jan 18, 2026Updated 3 weeks ago
• janelia-flyem / NeuTu

  View on GitHub
  Software package for neuron reconstruction and visualization
  ☆40May 27, 2025Updated 8 months ago
• seung-lab / cloud-volume

  View on GitHub
  Read and write Neuroglancer datasets programmatically.
  ☆171Feb 4, 2026Updated last week
• davidstutz / extended-berkeley-segmentation-benchmark

  View on GitHub
  Extended version of the Berkeley Segmentation Benchmark [1] used for evaluation in [2].
  ☆43Mar 28, 2019Updated 6 years ago
• heudiasyc / Evidence-fusion-with-contextual-discounting

  View on GitHub
  Code for paper "Evidence fusion with contextual discounting for multi-modality medical image segmentation"
  ☆18Oct 9, 2022Updated 3 years ago
• reimerlab / NEURD

  View on GitHub
  NEURD: A mesh decomposition framework for automated proofreading and morphological analysis of neuronal EM reconstructions
  ☆21Jan 23, 2026Updated 3 weeks ago
• berenslab / MorphoPy

  View on GitHub
  A Python package for feature extraction of neural morphologies
  ☆46Oct 20, 2025Updated 3 months ago
• takashi310 / VVD_Viewer

  View on GitHub
  ☆20Apr 14, 2023Updated 2 years ago
• 411-3 / PSP-CRF

  View on GitHub
  Improving Semantic Image Segmentation with a Probabilistic Superpixel-based Dense Conditional Random Field
  ☆24Jun 19, 2018Updated 7 years ago
• DerThorsten / nifty

  View on GitHub
  A nifty library for graph based image segmentation.
  ☆47May 3, 2025Updated 9 months ago
• Kitware / seaborn_altair

  View on GitHub
  Seaborn-compatible API for interactive Vega-Lite plots via Altair
  ☆21Sep 1, 2018Updated 7 years ago
• EmmaSRH / ARVFM

  View on GitHub
  Awesome autoregressive vision foundation models
  ☆25Dec 24, 2024Updated last year
• JaneliaSciComp / SharkViewer

  View on GitHub
  SharkViewer is a web-based viewer for SWC neuron files. It is written entirely in JavaScript using Three.js.
  ☆24Jan 8, 2023Updated 3 years ago
• DiamondLightSource / SuRVoS

  View on GitHub
  (Su)per (R)egion (Vo)lume (S)egmentaton workbench
  ☆25Jul 6, 2023Updated 2 years ago
• pleiszenburg / bewegung

  View on GitHub
  a versatile video renderer
  ☆28Mar 27, 2022Updated 3 years ago
• intel-iot-devkit / parking-lot-counter-cpp

  View on GitHub
  Receive or post information on available parking spaces by tracking how many vehicles enter and exit a parking lot.
  ☆23Jan 3, 2023Updated 3 years ago
• amy-tabb / tabb-level-set-segmentation

  View on GitHub
  A 3D level set method, based on a paper for X-Ray CT segmentation of root systems in WACV 2018.
  ☆25Jul 29, 2019Updated 6 years ago
• funkey / waterz

  View on GitHub
  Simple watershed and agglomeration library for affinity graphs.
  ☆28Sep 18, 2025Updated 4 months ago
• CRBS / cdeep3m

  View on GitHub
  Please go to https://github.com/CRBS/cdeep3m2 for most recent version
  ☆59Feb 9, 2020Updated 6 years ago
• seung-lab / zmesh

  View on GitHub
  Marching Cubes & Mesh Simplification on multi-label 3D images.
  ☆72Feb 6, 2026Updated last week