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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 93 10

  2. reprocess_public_10x reprocess_public_10x Public

    Scripts to help get fastqs

    Shell 19 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 470 70

  6. schard schard Public

    reticulate-free single cell format conversion

    R 220 17

Repositories

Showing 10 of 145 repositories
  • dockage Public

    Cellular Genomics Informatics Dockerfiles

    cellgeni/dockage's past year of commit activity
    Dockerfile 3 AGPL-3.0 1 0 0 Updated Sep 9, 2026
  • nf-processed2irods Public

    Pipeline to move processed datasets to irods

    cellgeni/nf-processed2irods's past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Sep 8, 2026
  • validate-hierarchy Public

    Validate directory and iRODS collection hierarchies against a declarative YAML schema

    cellgeni/validate-hierarchy's past year of commit activity
    Python 0 MIT 0 0 0 Updated Sep 8, 2026
  • nf-modules Public
    cellgeni/nf-modules's past year of commit activity
    Python 1 MIT 0 0 2 Updated Sep 7, 2026
  • nf-scsajr Public

    single cell alternative splicing

    cellgeni/nf-scsajr's past year of commit activity
    R 2 0 0 0 Updated Sep 4, 2026
  • alignment_HE_DAPI Public

    multimodal alignment H&E RGB images to DAPI one channel images

    cellgeni/alignment_HE_DAPI's past year of commit activity
    Jupyter Notebook 2 MIT 0 0 0 Updated Sep 4, 2026
  • nf-reprocessing-public-10x Public

    Nextflow pipeline of Alex's reprocessing scripts

    cellgeni/nf-reprocessing-public-10x's past year of commit activity
    Shell 0 GPL-3.0 0 1 0 Updated Sep 3, 2026
  • STARsolo Public

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

    cellgeni/STARsolo's past year of commit activity
    Shell 93 GPL-3.0 10 4 1 Updated Sep 3, 2026
  • nf-scenicplus Public
    cellgeni/nf-scenicplus's past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Sep 2, 2026
  • explorer Public
    cellgeni/explorer's past year of commit activity
    TypeScript 0 0 0 0 Updated Sep 1, 2026
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