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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 12 3

  3. c2l c2l Public

    Set of scripts to run cell2location on farm

    Jupyter Notebook 1

  4. cellatac cellatac Public

    Sanger Cellular Genetics single-cell ATAC-seq pipeline.

    Nextflow 10 6

  5. notebooks notebooks Public

    Cellular Genetics Informatics Notebooks

    HTML 20 12

  6. nf-cellbender nf-cellbender Public

    Nextflow implementation of Cellbender

    R

Repositories

Showing 10 of 86 repositories
  • visutils Public

    set of function for qc and visualization of Visium data

    cellgeni/visutils’s past year of commit activity
    R 1 MIT 0 0 0 Updated Oct 8, 2024
  • schard Public

    reticulate-free single cell format conversion

    cellgeni/schard’s past year of commit activity
    R 76 GPL-3.0 4 2 0 Updated Oct 8, 2024
  • farmer Public

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

    cellgeni/farmer’s past year of commit activity
    Python 1 AGPL-3.0 0 0 0 Updated Oct 8, 2024
  • unwrap_CNS Public

    Truing visium spots of CNS from Embryo

    cellgeni/unwrap_CNS’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Oct 7, 2024
  • image_registration_tools Public

    tools for image registration

    cellgeni/image_registration_tools’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Oct 7, 2024
  • 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
    Nextflow 0 MIT 1 0 0 Updated Oct 5, 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 0 MIT 2 0 0 Updated Oct 4, 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 Oct 4, 2024
  • GBM-stuff Public

    Storing the scripts for use in the GBM project

    cellgeni/GBM-stuff’s past year of commit activity
    Java 1 MIT 0 1 0 Updated Oct 3, 2024
  • dockage Public

    Cellgeni Docker files

    cellgeni/dockage’s past year of commit activity
    Dockerfile 0 AGPL-3.0 0 0 0 Updated Oct 2, 2024
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