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@royerlab Royer Lab at CZB SF

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    45 repositories

    • ultrack-i2k2024

      Public
      Ultrack From Images to Knowledge (I2k) 2024 Workshop
      cell-trackingcell-tracking-challengeultrack
      BSD 3-Clause "New" or "Revised" License
      •1•4•0•0•Updated Jan 13, 2025Jan 13, 2025

    • inTRACKtive

      Public
      Interactive visualization and sharing of cell tracking data in the browser
      TypeScript
      •
      MIT License
      •1•21•18•7•Updated Jan 11, 2025Jan 11, 2025

    • ultrack_CTC_submission

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • ultrack

      Public
      Cell tracking and segmentation software
      gurobicell-segmentationcell-trackingcell-tracking-challenge
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •14•102•43•1•Updated Jan 8, 2025Jan 8, 2025

    • python-mip-feedstock

      Public
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Dec 19, 2024Dec 19, 2024

    • czpeedy

      Public
      A tool for experimentally determining the best tensorstore spec for a given machine and dataset.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•3•0•Updated Dec 11, 2024Dec 11, 2024

    • softcopy

      Public
      Copies zarr archives from an acquisition frontend to a different disk, using filesystem watching and lockfiles to allow copying during acquisition
      Python
      •
      MIT License
      •0•0•3•0•Updated Dec 3, 2024Dec 3, 2024

    • dexpv2

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•1•0•Updated Nov 7, 2024Nov 7, 2024

    • napari-chatgpt

      Public
      A napari plugin to process and analyse images with chatGPT!
      CSS
      •
      BSD 3-Clause "New" or "Revised" License
      •27•267•13•0•Updated Oct 19, 2024Oct 19, 2024

    • slurmkit

      Public
      Simple SLURM python API
      Python
      •
      MIT License
      •1•7•0•0•Updated Oct 10, 2024Oct 10, 2024

    • napari-royerlab-data

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Oct 11, 2024Oct 11, 2024

    • ssi-code

      Public
      Image Deconvolution via Noise-Tolerant Self-Supervised Inversion
      pythondenoise-imagesdeconvolve
      Python
      •10•29•2•3•Updated Sep 30, 2024Sep 30, 2024

    • napari-segment-anything-2

      Public
      Native Qt interface for Meta's Segment Anything 2 in Images and Videos
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•24•5•0•Updated Sep 26, 2024Sep 26, 2024

    • in-silico-fate-mapping

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•7•1•1•Updated Sep 14, 2024Sep 14, 2024

    • daxi

      Public
      High-Resolution, Large Field-of-View, and Multi-ViewSingle Objective Light-Sheet Microscopy
      Python
      •
      Other
      •2•26•1•0•Updated Sep 14, 2024Sep 14, 2024

    • opensimview

      Public
      New ClearControl + Dorado +.... combined repo
      Java
      •1•1•0•0•Updated Sep 23, 2024Sep 23, 2024

    • napari-dexp

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•0•0•1•Updated Sep 13, 2024Sep 13, 2024

    • zebrahub-napari-animation

      Public
      Zebrahub's napari-animation demo
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Sep 13, 2024Sep 13, 2024

    • zebrahub-paper-hcr-analysis

      Public
      Scripts for analyzing HCR data for zebrafish tail.
      Python
      •0•0•0•0•Updated Sep 13, 2024Sep 13, 2024

    • zebrahub-protocols

      Public
      Creative Commons Zero v1.0 Universal
      •0•2•0•0•Updated Sep 13, 2024Sep 13, 2024

    • zebrahub-paper-umap-3d

      Public
      Generate 3D UMAPs of zebrafish
      Python
      •
      MIT License
      •2•5•0•0•Updated Sep 13, 2024Sep 13, 2024

    • cytoself

      Public
      Self-supervised models for encoding protein localization patterns from microscopy images
      pytorchproteinautoencoderfluorescencemicroscopyimagingself-supervisedself-supervised-learningopencelldeep-learning
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •14•75•8•1•Updated Sep 13, 2024Sep 13, 2024

    • napari-segment-anything

      Public
      Segment Anything Model (SAM) native Qt UI
      Python
      •
      Apache License 2.0
      •18•192•14•3•Updated Aug 29, 2024Aug 29, 2024

    • ultrack-imagej

      Public
      Java
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 8, 2024Aug 8, 2024

    • ultrack-i2k2023

      Public
      Ultrack https://github.com/royerlab/ultrack from Images to Knowledge - 2023 workshop
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•2•0•0•Updated Jun 8, 2024Jun 8, 2024

    • .github

      Public
      0•0•0•0•Updated Apr 17, 2024Apr 17, 2024

    • preprints

      Public
      All Royer lab preprints can be found here
      0•0•0•0•Updated Jul 17, 2023Jul 17, 2023

    • dexp

      Public
      Dataset EXploration & Processing
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •6•31•10•0•Updated May 11, 2023May 11, 2023

    • aydin

      Public
      Aydin — User-friendly, Fast, Self-Supervised Image Denoising for All.
      pythonimageneural-networkimage-processingdenoisingmachine-learningdeep-learning
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •14•154•17•13•Updated Apr 14, 2023Apr 14, 2023

    • daxi-controller

      Public
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Feb 24, 2023Feb 24, 2023