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@uhlmanngroup Uhlmann Group @ EMBL-EBI

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    22 repositories

    • bioimage_embed

      Public
      Python
      •3•3•9•5•Updated Oct 9, 2024Oct 9, 2024

    • shape_embed

      Public
      Python
      •3•0•0•1•Updated Oct 2, 2024Oct 2, 2024

    • splinedist

      Public
      SplineDist: Automated Cell Segmentation with Spline Curves
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •15•65•3•2•Updated Sep 29, 2024Sep 29, 2024

    • MorphoDynamicsPipe

      Public
      A library that uses snakemake to run a morphodynamics analysis on images of cells or nuclei..
      dynamicsmorphologycellimaging
      Python
      •
      GNU General Public License v2.0
      •0•2•0•0•Updated Sep 19, 2024Sep 19, 2024

    • imagequantification101

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

    • soft-target-InfoNCE

      Public
      Noise contrastive estimation with soft targets for conditional models
      Python
      •0•0•0•0•Updated Jun 24, 2024Jun 24, 2024

    • shapeanalysis101

      Public
      A tutorial of classical shape analysis methods
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •2•11•5•1•Updated Nov 25, 2023Nov 25, 2023

    • cir4mics

      Public
      Simulating structurally variable Nuclear Pore Complexes for Microscopy
      Jupyter Notebook
      •
      MIT License
      •0•2•1•0•Updated Sep 8, 2023Sep 8, 2023

    • nuclear_phenotyping

      Public
      Python
      •1•2•1•2•Updated Jun 26, 2023Jun 26, 2023

    • ZeroCostDL4Mic

      Public
      ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy
      Jupyter Notebook
      •
      MIT License
      •129•0•0•0•Updated Jun 6, 2023Jun 6, 2023

    • cpnet

      Public
      A Learning Based Formulation of Parametric Curve Fitting for Bioimage Analysis.
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 20, 2023Mar 20, 2023

    • bioimage_phenotyping

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Mar 8, 2023Mar 8, 2023

    • napari-splineit

      Public
      Util to visualize and manipulate spline curves in Napari
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•5•0•0•Updated Feb 16, 2023Feb 16, 2023

    • napari-splinedist

      Public
      Python
      •
      MIT License
      •1•1•2•0•Updated Feb 16, 2023Feb 16, 2023

    • muMatch

      Public
      Pipeline for putting surface meshes into correspondence
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •5•23•4•0•Updated Jan 30, 2023Jan 30, 2023

    • SimulateNPCs

      Public
      Simulate structurally variable Nuclear Pore Complexes
      Python
      •
      MIT License
      •1•0•2•0•Updated May 13, 2022May 13, 2022

    • middle-axis-estimations

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 22, 2022Apr 22, 2022

    • opt2mesh

      Public
      Extract meshes from Optical Projective Tomography data
      Python
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Jan 22, 2022Jan 22, 2022

    • pyshot

      Public
      A Python API for the SHOT descriptor
      computer-visionpoint-cloudshotcython-wrappershot-detection
      C++
      •
      GNU General Public License v3.0
      •8•21•3•0•Updated Jan 1, 2022Jan 1, 2022

    • Cestimii

      Public
      Curvature Estimation using Integral Invariants
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•3•0•Updated Oct 5, 2021Oct 5, 2021

    • spline-interpolation

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Oct 1, 2021Oct 1, 2021

    • AURA-Net

      Public
      Jupyter Notebook
      •1•5•0•0•Updated Jun 9, 2021Jun 9, 2021