Skip to content

@FrancisCrickInstitute The Francis Crick Institute

Change the repository type filter

All

    Repositories list

    163 repositories

    • ai-on-demand

      Public
      Python
      •
      GNU General Public License v3.0
      •0•3•3•1•Updated Oct 23, 2025Oct 23, 2025

    • introduction-to-image-analysis

      Public
      Jupyter Notebook
      •
      Creative Commons Attribution Share Alike 4.0 International
      •4•9•0•0•Updated Oct 23, 2025Oct 23, 2025

    • TWOMBLI

      Public
      A ImageJ Plugin implementation of TWOMBLI
      Java
      •
      Creative Commons Attribution 4.0 International
      •6•0•3•0•Updated Oct 23, 2025Oct 23, 2025

    • muvis-align

      Public
      Testing stitching of multiview-stitcher
      Python
      •
      Other
      •0•1•0•0•Updated Oct 20, 2025Oct 20, 2025

    • negative_parental_switch

      Public
      Jupyter Notebook
      •0•0•0•1•Updated Oct 18, 2025Oct 18, 2025

    • Segment-Flow

      Public
      Nextflow pipeline for deep learning segmentation models
      Python
      •1•4•0•0•Updated Oct 16, 2025Oct 16, 2025

    • introduction-to-image-analysis-python

      Public
      Jupyter Notebook
      •
      Creative Commons Attribution Share Alike 4.0 International
      •4•0•0•0•Updated Oct 15, 2025Oct 15, 2025

    • asf-tools

      Public
      ASF Tools command line tool-kit for ASF operations.
      Python
      •
      MIT License
      •1•0•0•0•Updated Oct 9, 2025Oct 9, 2025

    • Image-Analysis-Group

      Public
      We are the Image Analysis Group at the Francis Crick Institute.
      Jupyter Notebook
      •
      Creative Commons Attribution Share Alike 4.0 International
      •2•4•4•0•Updated Oct 8, 2025Oct 8, 2025

    • AIoD-Model-Registry

      Public
      The core registry for all AI models available on AI on Demand
      Python
      •0•2•2•1•Updated Sep 26, 2025Sep 26, 2025

    • Monitor-Blanking-V2

      Public
      Monitor blanking for msi displays
      GNU General Public License v3.0
      •0•0•0•0•Updated Sep 26, 2025Sep 26, 2025

    • OmeSliCC

      Public
      Ome(ro) SLide Image Conversion and Compression pipline (OmeSliCC)
      ome-zarr-converter
      Python
      •
      Other
      •1•7•0•0•Updated Sep 24, 2025Sep 24, 2025

    • IDR-Training-Data

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Sep 23, 2025Sep 23, 2025

    • aiod_utils

      Public
      Python
      •0•0•1•1•Updated Sep 19, 2025Sep 19, 2025

    • DNGR1_XP

      Public
      R
      •
      GNU General Public License v2.0
      •0•0•0•0•Updated Sep 18, 2025Sep 18, 2025

    • multi-dimensional-imaging-and-analysis

      Public
      Jupyter Notebook
      •1•4•0•0•Updated Sep 16, 2025Sep 16, 2025

    • Boulat-et-al_2025_GeoMx-DSP-data

      Public
      GeoMx-DSP Spatial Transcriptomics data for "Tumor-derived Lactate Imposes a Metabolic Barrier to B Cell Infiltration and TLS Formation"
      0•0•0•0•Updated Sep 15, 2025Sep 15, 2025

    • sparks-ai

      Public template
      HTML
      •0•0•0•0•Updated Sep 8, 2025Sep 8, 2025

    • py-bioimage-qc

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Aug 31, 2025Aug 31, 2025

    • Making-Lab-Repositories

      Public
      0•3•0•0•Updated Aug 26, 2025Aug 26, 2025

    • Spheroid_culture

      Public
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 20, 2025Aug 20, 2025

    • Imaris-3D-LN-stats

      Public
      Imaris-3D-LN-stats
      R
      •
      MIT License
      •0•0•0•0•Updated Aug 12, 2025Aug 12, 2025

    • cutandrun

      Public
      Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.
      Nextflow
      •
      MIT License
      •62•0•0•0•Updated Aug 11, 2025Aug 11, 2025

    • dynamical-systems

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Aug 1, 2025Aug 1, 2025

    • TYPEx

      Public
      Deep cell phenoTYPE characterisation using multipleX imaging
      R
      •
      MIT License
      •0•0•1•0•Updated Aug 1, 2025Aug 1, 2025

    • TRACERx-PHLEX

      Public
      Modular pipeline for integrated analysis of the tumour microenvironment using multiplex imaging
      Shell
      •
      MIT License
      •0•12•7•0•Updated Jul 29, 2025Jul 29, 2025

    • hts_neutralisation_launcher

      Public
      Automate neutralisation analyses
      Python
      •0•0•2•0•Updated Jul 25, 2025Jul 25, 2025

    • chronogram

      Public
      cast and annotate metadata, laboratory & clinical data
      R
      •
      Other
      •0•3•0•0•Updated Jul 24, 2025Jul 24, 2025

    • deep-imcyto

      Public
      Nextflow pipeline for IMC segmentation tasks.
      Python
      •
      Other
      •0•5•15•0•Updated Jul 18, 2025Jul 18, 2025

    • bc_matlab

      Public
      HTML
      •
      MIT License
      •0•0•0•0•Updated Jul 16, 2025Jul 16, 2025