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    130 repositories

    • Segment-Flow

      Public
      Nextflow pipeline for deep learning segmentation models
      Python
      •1•2•0•0•Updated Nov 18, 2024Nov 18, 2024

    • sparks

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•5•0•0•Updated Nov 18, 2024Nov 18, 2024

    • OmeSliCC

      Public
      Ome(ro) SLide Image Conversion and Compression pipline (OmeSliCC)
      ome-zarr-converter
      Python
      •
      Other
      •1•7•0•0•Updated Nov 18, 2024Nov 18, 2024

    • chronogram

      Public
      cast and annotate metadata, laboratory & clinical data
      R
      •
      Other
      •0•1•0•0•Updated Nov 8, 2024Nov 8, 2024

    • CALM

      Public
      Crick Advanced Light Microscopy
      Jupyter Notebook
      •
      Creative Commons Attribution Share Alike 4.0 International
      •1•1•4•0•Updated Nov 7, 2024Nov 7, 2024

    • nextflow-modules

      Public
      Contains managed modules and subworkflows for Nextflow that can be installed into pipelines
      Nextflow
      •
      MIT License
      •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

    • MT_Force_Spindle

      Public
      Public codes for Chu et al.,
      Jupyter Notebook
      •0•0•0•0•Updated Oct 28, 2024Oct 28, 2024

    • CBIAS_napari_workshop_2024

      Public
      CBIAS napari workshop 2024 - run as part of the Crick Bioimage Analysis Symposium 2024
      0•1•0•0•Updated Oct 26, 2024Oct 26, 2024

    • network_invsync

      Public
      Verify ISE and YAML inventory are synchronized
      Python
      •
      GNU General Public License v3.0
      •0•0•0•11•Updated Oct 22, 2024Oct 22, 2024

    • introduction-to-image-analysis

      Public
      Jupyter Notebook
      •
      Creative Commons Attribution Share Alike 4.0 International
      •2•2•0•0•Updated Oct 21, 2024Oct 21, 2024

    • AIoD-Model-Registry

      Public
      The core registry for all AI models available on AI on Demand
      Python
      •0•0•2•0•Updated Oct 15, 2024Oct 15, 2024

    • babs-data-challenge-rna-atac

      Public
      Recruitment ATAC & RNA-seq data challenge questions and material
      2•0•0•0•Updated Oct 10, 2024Oct 10, 2024

    • Making-Lab-Repositories

      Public
      0•2•0•0•Updated Oct 9, 2024Oct 9, 2024

    • Monitor-Blanking-V2

      Public
      Monitor blanking for msi displays
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 9, 2024Oct 9, 2024

    • TWOMBLI

      Public
      A ImageJ Plugin implementation of TWOMBLI
      Java
      •3•0•3•0•Updated Oct 9, 2024Oct 9, 2024

    • cellpose

      Public
      a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •401•0•0•0•Updated Oct 7, 2024Oct 7, 2024

    • multi-dimensional-imaging-and-analysis

      Public
      Jupyter Notebook
      •1•2•0•0•Updated Sep 24, 2024Sep 24, 2024

    • sparks-ai

      Public template
      HTML
      •0•0•0•0•Updated Sep 19, 2024Sep 19, 2024

    • uniprot_annotation

      Public
      A script to collect residue annotations for a list of proteins using the UniProt ID mapping tool
      Python
      •0•0•0•0•Updated Sep 18, 2024Sep 18, 2024

    • TYPEx

      Public
      Deep cell phenoTYPE characterisation using multipleX imaging
      R
      •
      MIT License
      •0•0•1•0•Updated Sep 12, 2024Sep 12, 2024

    • plaque_assay

      Public
      Analysis code for covid-19 serology neutralisation assay.
      Python
      •
      MIT License
      •1•0•6•0•Updated Sep 5, 2024Sep 5, 2024

    • 3D-printer-simulator

      Public
      3D printer simulator
      Python
      •
      GNU General Public License v3.0
      •3•0•0•0•Updated Aug 30, 2024Aug 30, 2024

    • image-analysis-outreach

      Public
      A collection of materials and information for school outreach sessions about image analysis
      GNU General Public License v3.0
      •0•2•0•0•Updated Aug 20, 2024Aug 20, 2024

    • python-decon

      Public
      Python
      •0•0•0•0•Updated Aug 7, 2024Aug 7, 2024

    • rgb-colour-slider

      Public
      Colour slider activity to teach how RGB colours combine
      HTML
      •1•0•0•0•Updated Aug 5, 2024Aug 5, 2024

    • segment-anything

      Public
      The repository provides code for running inference with the SegmentAnything Model (SAM), links for downloading the trained model checkpoints, and example notebooks that show how to use the model.
      Jupyter Notebook
      •
      Apache License 2.0
      •5.6k•0•0•0•Updated Jul 26, 2024Jul 26, 2024

    • hts_neutralisation_launcher

      Public
      Automate neutralisation analyses
      Python
      •1•0•2•0•Updated Jul 22, 2024Jul 22, 2024

    • TRACERx-PHLEX

      Public
      Modular pipeline for integrated analysis of the tumour microenvironment using multiplex imaging
      Shell
      •
      MIT License
      •0•12•1•0•Updated Jul 9, 2024Jul 9, 2024

    • PARSEG

      Public
      A novel approach to tackle overlapping segmentation in bioimages. Vanessa Dao, ELMI 2024
      Jupyter Notebook
      •
      Creative Commons Attribution Share Alike 4.0 International
      •0•0•6•0•Updated Jun 28, 2024Jun 28, 2024

    • Bpod_Gen2

      Public
      Repository for 2nd generation Bpod platform (formerly beta branch of Bpod repository)
      MATLAB
      •
      GNU General Public License v3.0
      •37•0•0•0•Updated Jun 27, 2024Jun 27, 2024