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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 56 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 422 62

  6. schard schard Public

    reticulate-free single cell format conversion

    R 151 10

Repositories

Showing 10 of 110 repositories
  • nf-modules Public
    cellgeni/nf-modules’s past year of commit activity
    Python 0 MIT 0 0 1 Updated May 16, 2025
  • reprocess_irods_upload Public

    A repo with collection of scripts and notebooks which where used to validate and upload datasets to IRODS

    cellgeni/reprocess_irods_upload’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated May 15, 2025
  • nf-atac Public

    Pipeline to process sc-ATAC data with pyCistopic

    cellgeni/nf-atac’s past year of commit activity
    Python 1 MIT 0 1 1 Updated May 15, 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 May 13, 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 May 13, 2025
  • nf-cellsnplite Public
    cellgeni/nf-cellsnplite’s past year of commit activity
    Nextflow 0 0 0 0 Updated May 12, 2025
  • ovary Public
    cellgeni/ovary’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated May 8, 2025
  • modules Public Forked from nf-core/modules

    Repository to host tool-specific module files for the Nextflow DSL2 community!

    cellgeni/modules’s past year of commit activity
    Nextflow 0 MIT 861 0 0 Updated May 7, 2025
  • dockage Public

    Cellgeni Docker files

    cellgeni/dockage’s past year of commit activity
    Dockerfile 1 AGPL-3.0 0 0 0 Updated May 6, 2025
  • 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 May 1, 2025
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