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    20 repositories

    • llsm_viewer

      Public
      TypeScript
      •0•3•0•0•Updated Apr 18, 2026Apr 18, 2026

    • pikfyve_endosome_fusion_mechanics

      Public
      MATLAB code for 3D particle track visualization, MSD analysis, and simulations to quantify viral motion in expanded endosomes upon PIKfyve inhibition.
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated Apr 17, 2026Apr 17, 2026

    • spatialdino

      Public
      Python
      •
      MIT License
      •0•5•1•4•Updated Apr 9, 2026Apr 9, 2026

    • incasem

      Public
      Automated Segmentation of cellular substructures in Electron Microscopy
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•18•2•0•Updated Jan 28, 2026Jan 28, 2026

    • Adams-Very-Cool-Viewer-AVCV

      Public
      Interactive imaging viewer for multi-channel time-series microscopy data
      Python
      •
      MIT License
      •0•1•0•0•Updated Aug 28, 2025Aug 28, 2025

    • Cryosamba

      Public
      Python
      •
      MIT License
      •3•13•4•2•Updated Aug 14, 2025Aug 14, 2025

    • nuclei-segmenter

      Public
      Pipeline for segmenting nuclei and masking corresponding fluorescent signals
      Python
      •0•0•0•0•Updated Jul 15, 2025Jul 15, 2025

    • TKLabWIKI

      Public
      HTML
      •0•0•0•0•Updated Mar 26, 2025Mar 26, 2025

    • funlib.learn.torch_TKLAB

      Public
      Pytorch Models
      Python
      •12•0•0•0•Updated Oct 1, 2024Oct 1, 2024

    • funlib.persistence_TKLAB

      Public
      Interfaces for data (arrays and graphs) and storage formats (databases and file formats)
      Python
      •
      MIT License
      •12•0•0•0•Updated Oct 1, 2024Oct 1, 2024

    • tklab_funlib_geometry

      Public
      A package for Coordinates, Rois and common operations in Coordinate spaces
      Python
      •
      MIT License
      •4•0•0•0•Updated Apr 26, 2024Apr 26, 2024

    • funlib.show.neuroglancer

      Public
      Scripts and helpers for the neuroglancer WebGL viewer.
      Python
      •12•0•0•0•Updated Apr 17, 2024Apr 17, 2024

    • gc_segment

      Public
      Annotation-based organelle segmentation using graph cuts
      Python
      •
      GNU General Public License v3.0
      •0•2•1•0•Updated Jan 31, 2024Jan 31, 2024

    • incasem.site

      Public
      0•0•0•0•Updated Feb 9, 2023Feb 9, 2023

    • PlotNeuralNet

      Public
      Latex code for making neural networks diagrams
      Python
      •
      MIT License
      •3.1k•0•0•0•Updated Feb 10, 2022Feb 10, 2022

    • llsm-deskew-after-collection

      Public
      Start the deskew after the sample has completed all the acquisition
      MATLAB
      •0•0•0•0•Updated Sep 7, 2021Sep 7, 2021

    • lsd

      Public
      🌈
      Python
      •42•0•0•0•Updated Jun 16, 2021Jun 16, 2021

    • gunpowder

      Public
      A library to facilitate machine learning on multi-dimensional images.
      Python
      •
      MIT License
      •58•0•0•0•Updated Mar 12, 2021Mar 12, 2021

    • funlib.learn.torch

      Public
      Python
      •12•0•0•0•Updated Sep 10, 2020Sep 10, 2020

    • sacred

      Public
      Sacred is a tool to help you configure, organize, log and reproduce experiments developed at IDSIA.
      Python
      •
      MIT License
      •391•0•0•0•Updated Jul 15, 2020Jul 15, 2020
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