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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 49 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 405 60

  6. schard schard Public

    reticulate-free single cell format conversion

    R 123 8

Repositories

Showing 10 of 99 repositories
  • OMERO_tools Public
    cellgeni/OMERO_tools’s past year of commit activity
    Python 0 0 0 0 Updated Feb 13, 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 0 0 Updated Feb 13, 2025
  • nf-fgwas Public

    Nextflow implementation of fGWAS

    cellgeni/nf-fgwas’s past year of commit activity
    C 4 BSD-3-Clause 0 0 0 Updated Feb 12, 2025
  • dockage Public

    Cellgeni Docker files

    cellgeni/dockage’s past year of commit activity
    Dockerfile 1 AGPL-3.0 0 0 0 Updated Feb 12, 2025
  • nf-cellbender Public

    Nextflow implementation of Cellbender

    cellgeni/nf-cellbender’s past year of commit activity
    R 0 MIT 0 0 1 Updated Feb 11, 2025
  • 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 0 MIT 0 0 0 Updated Feb 11, 2025
  • nf-irods-to-fastq Public

    Get CRAMs from iRODS and convert them to FASTQ

    cellgeni/nf-irods-to-fastq’s past year of commit activity
    Nextflow 2 MIT 2 0 0 Updated Feb 10, 2025
  • farmer Public

    Slack bot that tells you the status of your LSF jobs 🧑‍🌾

    cellgeni/farmer’s past year of commit activity
    Python 3 AGPL-3.0 0 0 0 Updated Feb 10, 2025
  • docs Public

    CellGen IT documentation

    cellgeni/docs’s past year of commit activity
    1 MIT 4 0 0 Updated Feb 7, 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 754 0 0 Updated Feb 6, 2025
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