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@cellgeni

Cellular Genomics 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 96 10

  2. reprocess_public_10x reprocess_public_10x Public

    Scripts to help get fastqs

    Shell 20 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 471 69

  6. schard schard Public

    reticulate-free single cell format conversion

    R 222 16

Repositories

Showing 10 of 148 repositories
  • adata-cli Public

    A CLI for operations with AnnData objects in .h5ad and .zarr files

    cellgeni/adata-cli's past year of commit activity
    Python 9 MIT 1 7 2 Updated Oct 16, 2026
  • fetch-series Public
    cellgeni/fetch-series's past year of commit activity
    Python 0 MIT 0 0 2 Updated Oct 16, 2026
  • STARsolo Public

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

    cellgeni/STARsolo's past year of commit activity
    Shell 96 GPL-3.0 10 3 1 Updated Oct 15, 2026
  • STAR Public Forked from alexdobin/STAR

    RNA-seq aligner

    cellgeni/STAR's past year of commit activity
    C 0 MIT 576 0 0 Updated Oct 15, 2026
  • dockage Public

    Cellular Genomics Informatics Dockerfiles

    cellgeni/dockage's past year of commit activity
    Dockerfile 3 AGPL-3.0 1 0 0 Updated Oct 13, 2026
  • spatialdata-dissect Public

    Tissue-region detection and cropping tools for Xenium data in SpatialData objects.

    cellgeni/spatialdata-dissect's past year of commit activity
    Jupyter Notebook 2 MIT 0 0 0 Updated Oct 13, 2026
  • docs Public

    CellGen IT documentation

    cellgeni/docs's past year of commit activity
    1 MIT 4 0 0 Updated Oct 13, 2026
  • explorer Public
    cellgeni/explorer's past year of commit activity
    TypeScript 0 0 0 0 Updated Oct 13, 2026
  • nf-reprocessing-public-10x Public

    A pipeline to reprocess public 10X scRNA-seq datasets

    cellgeni/nf-reprocessing-public-10x's past year of commit activity
    Python 0 GPL-3.0 0 25 0 Updated Oct 10, 2026
  • nf-modules Public
    cellgeni/nf-modules's past year of commit activity
    Python 1 MIT 0 0 2 Updated Oct 9, 2026
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