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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 52 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 413 61

  6. schard schard Public

    reticulate-free single cell format conversion

    R 130 8

Repositories

Showing 10 of 102 repositories
  • 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 758 0 0 Updated Mar 18, 2025
  • nf-scsajr Public

    single cell alternative splicing

    cellgeni/nf-scsajr’s past year of commit activity
    R 0 0 0 0 Updated Mar 18, 2025
  • STARsolo Public

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

    cellgeni/STARsolo’s past year of commit activity
    Shell 52 GPL-3.0 6 0 0 Updated Mar 18, 2025
  • dockage Public

    Cellgeni Docker files

    cellgeni/dockage’s past year of commit activity
    Dockerfile 1 AGPL-3.0 0 0 0 Updated Mar 17, 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 Mar 16, 2025
  • nf-scautoqc Public

    Nextflow implementation of scAutoQC pipeline

    cellgeni/nf-scautoqc’s past year of commit activity
    Python 3 GPL-3.0 0 0 0 Updated Mar 14, 2025
  • nf-metacells Public
    cellgeni/nf-metacells’s past year of commit activity
    Python 0 0 0 0 Updated Mar 14, 2025
  • nf-scVI-metrics Public

    Grid search to optimise hyperparameters for scVI

    cellgeni/nf-scVI-metrics’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Mar 13, 2025
  • nf-cellbender Public

    Nextflow implementation of Cellbender

    cellgeni/nf-cellbender’s past year of commit activity
    R 0 MIT 0 0 0 Updated Mar 11, 2025
  • docs Public

    CellGen IT documentation

    cellgeni/docs’s past year of commit activity
    1 MIT 4 0 0 Updated Mar 7, 2025
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