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@cellgeni

Cellular Genetics Informatics

Wellcome Sanger Institute

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  1. STARsolo STARsolo Public

    wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq

    Shell 55 6

  2. reprocess_public_10x reprocess_public_10x Public

    Scripts to help get fastqs

    Shell 13 3

  3. c2l c2l Public

    Set of scripts to run cell2location on farm

    Jupyter Notebook 2

  4. nf-cellbender nf-cellbender Public

    Nextflow implementation of Cellbender

    R

  5. sceasy sceasy Public

    A package to help convert different single-cell data formats to each other

    R 418 61

  6. schard schard Public

    reticulate-free single cell format conversion

    R 142 8

Repositories

Showing 10 of 108 repositories
  • visutils Public

    set of function for qc and visualization of Visium data

    cellgeni/visutils’s past year of commit activity
    R 2 MIT 0 0 0 Updated Apr 24, 2025
  • nf-modules Public
    cellgeni/nf-modules’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Apr 24, 2025
  • dockage Public

    Cellgeni Docker files

    cellgeni/dockage’s past year of commit activity
    Dockerfile 1 AGPL-3.0 0 0 0 Updated Apr 24, 2025
  • Image-ST Public

    A pipeline to generate count matrix for different spatial technologies. ISS/MERFISH-like data are decoded using PoSTcode

    cellgeni/Image-ST’s past year of commit activity
    Python 1 MIT 1 0 0 Updated Apr 23, 2025
  • nf-metacells Public
    cellgeni/nf-metacells’s past year of commit activity
    Python 0 0 0 0 Updated Apr 22, 2025
  • nf-cellbender Public

    Nextflow implementation of Cellbender

    cellgeni/nf-cellbender’s past year of commit activity
    R 0 MIT 0 0 0 Updated Apr 17, 2025
  • example-module-2 Public
    cellgeni/example-module-2’s past year of commit activity
    Nextflow 0 0 0 0 Updated Apr 16, 2025
  • example-module-1 Public
    cellgeni/example-module-1’s past year of commit activity
    Nextflow 0 0 0 0 Updated Apr 16, 2025
  • xenium_vistools Public

    visualisation codes for Xenium experiments

    cellgeni/xenium_vistools’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Apr 14, 2025
  • nf-scautoqc Public

    Nextflow implementation of scAutoQC pipeline

    cellgeni/nf-scautoqc’s past year of commit activity
    Python 6 GPL-3.0 0 0 0 Updated Apr 11, 2025
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