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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 44 5

  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 385 57

  6. schard schard Public

    reticulate-free single cell format conversion

    R 87 4

Repositories

Showing 10 of 92 repositories
  • cloupe Public

    Cloupe reader

    cellgeni/cloupe’s past year of commit activity
    Jupyter Notebook 0 AGPL-3.0 0 2 1 Updated Nov 22, 2024
  • nf-scautoqc Public

    Nextflow implementation of scAutoQC pipeline

    cellgeni/nf-scautoqc’s past year of commit activity
    Python 1 GPL-3.0 0 0 0 Updated Nov 22, 2024
  • visium_vistools Public

    visualisation tools for Visium outputs

    cellgeni/visium_vistools’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Nov 22, 2024
  • docs Public

    CellGen IT documentation

    cellgeni/docs’s past year of commit activity
    1 MIT 4 0 0 Updated Nov 22, 2024
  • nf-atac Public
    cellgeni/nf-atac’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 21, 2024
  • 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 1 MIT 2 0 0 Updated Nov 21, 2024
  • nf-scsajr Public

    single cell alternative splicing

    cellgeni/nf-scsajr’s past year of commit activity
    R 0 0 0 0 Updated Nov 21, 2024
  • nf-demultiplex Public

    Our Souporcell repo but for Nextflow Tower

    cellgeni/nf-demultiplex’s past year of commit activity
    Nextflow 0 MIT 0 1 0 Updated Nov 20, 2024
  • napari-large-3d-vis Public

    napari plugin which allows to visualize any size 3D volumetric image without exceeding maximum allowed RAM size

    cellgeni/napari-large-3d-vis’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 18, 2024
  • 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 Nov 15, 2024
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