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    74 repositories

    • synister

      Public
      Neurotransmitter prediction from EM.
      Python
      •5•10•3•1•Updated Feb 24, 2025Feb 24, 2025

    • funlib.learn.torch

      Public
      Pytorch Models
      Python
      •12•6•2•6•Updated Feb 20, 2025Feb 20, 2025

    • motile_tracker

      Public
      An application for interactive for tracking with motile
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •4•7•49•3•Updated Feb 19, 2025Feb 19, 2025

    • funlib.persistence

      Public
      Interfaces for data (arrays and graphs) and storage formats (databases and file formats)
      Python
      •
      MIT License
      •11•4•7•1•Updated Feb 18, 2025Feb 18, 2025

    • blinx_paper

      Public
      blinx paper
      TeX
      •1•0•0•0•Updated Feb 14, 2025Feb 14, 2025

    • funtracks

      Public
      A data model for cell tracking with actions, undo history, and more!
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•4•0•Updated Feb 12, 2025Feb 12, 2025

    • spatial_graph

      Public
      A spatial graph datastructure for python
      C++
      •
      MIT License
      •1•3•2•0•Updated Feb 6, 2025Feb 6, 2025

    • quac

      Public
      Quantitative Attributions with Counterfactuals
      Python
      •
      MIT License
      •0•2•7•1•Updated Feb 3, 2025Feb 3, 2025

    • motile

      Public
      Multi-Object Tracker using Integer Linear Equations
      Python
      •
      MIT License
      •5•29•18•4•Updated Feb 3, 2025Feb 3, 2025

    • witty

      Public
      A "well-in-time" compiler for python: use cython to compile pyx modules at runtime.
      Python
      •
      MIT License
      •1•3•0•1•Updated Feb 3, 2025Feb 3, 2025

    • finn

      Public
      finn is (not) napari
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•10•0•Updated Jan 29, 2025Jan 29, 2025

    • geff

      Public
      Reference implementation of the Graph Exchange File Format
      Python
      •
      MIT License
      •0•0•11•0•Updated Jan 29, 2025Jan 29, 2025

    • drosophila_neurotransmitters

      Public
      Neurotransmitter ground truth
      TeX
      •0•1•0•0•Updated Jan 27, 2025Jan 27, 2025

    • motile_toolbox

      Public
      A toolbox for tracking with motile, including constructing candidate graphs and computing common features.
      Python
      •1•4•2•2•Updated Jan 21, 2025Jan 21, 2025

    • gunpowder

      Public
      A library to facilitate machine learning on multi-dimensional images.
      computer-visionpipelinemultidimensionalgunpowdermachine-learning
      Python
      •
      MIT License
      •56•81•10•1•Updated Dec 10, 2024Dec 10, 2024

    • ilpy

      Public
      Unified python wrappers for popular ILP solvers
      C++
      •
      MIT License
      •2•3•5•4•Updated Dec 8, 2024Dec 8, 2024

    • quac_experiments

      Public
      Experiments for the QuAC method
      Python
      •0•1•3•0•Updated Nov 4, 2024Nov 4, 2024

    • daisy

      Public
      Block-wise task scheduling for large nD volumes.
      Python
      •
      MIT License
      •18•29•4•1•Updated Oct 28, 2024Oct 28, 2024

    • ilpy-feedstock

      Public
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Oct 25, 2024Oct 25, 2024

    • blinx

      Public
      Python
      •2•3•5•0•Updated Sep 3, 2024Sep 3, 2024

    • funlib.show.neuroglancer

      Public
      Scripts and helpers for the neuroglancer WebGL viewer.
      Python
      •13•6•0•0•Updated Aug 30, 2024Aug 30, 2024

    • blinx_sparkle_stats

      Public
      transformer models gone blinky
      Python
      •0•0•0•0•Updated Aug 9, 2024Aug 9, 2024

    • blinx_animation

      Public
      animation of blinking in the style of 3blue1brown
      Python
      •0•0•0•0•Updated Aug 9, 2024Aug 9, 2024

    • linajea_experiments

      Public
      Cell Tracking Experiments Scripts
      Python
      •0•3•0•0•Updated Jul 29, 2024Jul 29, 2024

    • napari-cellulus

      Public
      A napari plugin for cellulus
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•5•0•Updated Jun 18, 2024Jun 18, 2024

    • pycookie

      Public
      A cookie cutter repository for python projects.
      Python
      •2•1•0•0•Updated May 31, 2024May 31, 2024

    • funlib.segment

      Public
      Tools to segment graphs and volumes
      Python
      •7•1•0•1•Updated May 2, 2024May 2, 2024

    • funlib.geometry

      Public
      A package for Coordinates, Rois and common operations in Coordinate spaces
      Python
      •
      MIT License
      •3•1•0•0•Updated Apr 26, 2024Apr 26, 2024

    • latex_template

      Public
      A minimal LaTeX document to be used as a template for papers.
      TeX
      •1•1•0•0•Updated Apr 18, 2024Apr 18, 2024

    • fictus.aggregatum

      Public
      A dataset of fictional cells with protein aggregates.
      Python
      •0•0•1•0•Updated Apr 17, 2024Apr 17, 2024