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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 88 repositories
  • nf-atac Public
    cellgeni/nf-atac’s past year of commit activity
    Python 0 0 0 0 Updated Oct 30, 2024
  • c2l Public

    Set of scripts to run cell2location on farm

    cellgeni/c2l’s past year of commit activity
    Jupyter Notebook 1 MIT 0 0 0 Updated Oct 30, 2024
  • jupyter-images Public

    Cellular Genetics Informatics Docker Images for Jupyter

    cellgeni/jupyter-images’s past year of commit activity
    Dockerfile 1 GPL-3.0 0 0 0 Updated Oct 30, 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 Oct 30, 2024
  • nf-fgwas Public

    Nextflow implementation of fGWAS

    cellgeni/nf-fgwas’s past year of commit activity
    C 2 BSD-2-Clause 0 0 0 Updated Oct 29, 2024
  • cells2visium Public

    segmenting H&E images from Visium to assign each visium spot to the number of cell, occupancy and other morphological features of cells

    cellgeni/cells2visium’s past year of commit activity
    Python 1 MIT 0 0 0 Updated Oct 29, 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 28, 2024
  • SNP_tools Public

    storage for the tools for SNP projects we use

    cellgeni/SNP_tools’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Oct 23, 2024
  • dockage Public

    Cellgeni Docker files

    cellgeni/dockage’s past year of commit activity
    Dockerfile 1 AGPL-3.0 0 0 0 Updated Oct 22, 2024
  • 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 14, 2024
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