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@YeoLab

Yeo lab at UCSD

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  1. flotilla flotilla Public

    Reproducible machine learning analysis of gene expression and alternative splicing data

    Jupyter Notebook 124 26

  2. single-cell-bioinformatics single-cell-bioinformatics Public archive

    Course material in notebook format for learning about single cell bioinformatics methods

    Jupyter Notebook 101 39

  3. bento-tools bento-tools Public

    A Python toolkit for subcellular analysis of spatial transcriptomics data

    Python 71 6

  4. clipper clipper Public

    A tool to identify CLIP-seq peaks

    Python 66 42

  5. outrigger outrigger Public

    Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data

    Python 64 22

  6. sailor sailor Public

    CWL+Singularity implementation of an RNA editing workflow

    Jupyter Notebook 39 11

Repositories

Showing 10 of 65 repositories
  • bento-tools Public

    A Python toolkit for subcellular analysis of spatial transcriptomics data

    YeoLab/bento-tools’s past year of commit activity
    Python 71 BSD-2-Clause 6 17 1 Updated Nov 29, 2024
  • containers Public

    Collection of Dockerfiles

    YeoLab/containers’s past year of commit activity
    Dockerfile 0 1 2 0 Updated Nov 25, 2024
  • chim-eCLIP Public

    chimeric eCLIP processing pipeline

    YeoLab/chim-eCLIP’s past year of commit activity
    Common Workflow Language 2 MIT 1 0 0 Updated Nov 21, 2024
  • skipper Public

    Skip the peaks and expose RNA-binding in CLIP data

    YeoLab/skipper’s past year of commit activity
    R 8 3 5 1 Updated Nov 20, 2024
  • YeoLab/Mudskipper’s past year of commit activity
    Python 0 0 0 0 Updated Nov 16, 2024
  • HydRA Public Forked from Wenhao-Jin/HydRA
    YeoLab/HydRA’s past year of commit activity
    Python 9 2 0 0 Updated Oct 13, 2024
  • PRINTER Public

    Codebase used to generate analysis for PRINTER manuscript.

    YeoLab/PRINTER’s past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Oct 1, 2024
  • FLARE Public

    RNA edit detection (SAILOR) and peak calling (FLARE)

    YeoLab/FLARE’s past year of commit activity
    Python 6 3 4 2 Updated Mar 27, 2024
  • YeoLab/LR-Ribo-STAMP’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Feb 21, 2024
  • eclip-qc Public
    YeoLab/eclip-qc’s past year of commit activity
    Python 0 0 5 0 Updated Jan 8, 2024