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QuaDBio Lab

Quantitative Developmental Biology Lab

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  1. scRNAseq_analysis_vignette scRNAseq_analysis_vignette Public

    Tutorial for scRNA-seq data analysis beginners using R

    280 85

  2. Pando Pando Public

    Multiome GRN inference.

    R 144 26

  3. scMultiome_analysis_vignette scMultiome_analysis_vignette Public

    Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis

    84 19

  4. VoxHunt VoxHunt Public

    VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps

    HTML 48 6

  5. RNAseq_tutorial RNAseq_tutorial Public

    47 16

  6. simspec simspec Public

    Calculation of Reference/Cluster Similarity Spectrum (RSS/CSS)

    R 42 3

Repositories

Showing 10 of 61 repositories
  • scembed Public

    Run embedding comparisons for single-cell data

    quadbio/scembed's past year of commit activity
    Python 6 MIT 1 0 4 Updated Oct 12, 2026
  • slurm_sweep Public

    Hyperparameter sweeps on SLURM clusters

    quadbio/slurm_sweep's past year of commit activity
    Python 6 MIT 2 1 2 Updated Oct 12, 2026
  • cell-annotator Public

    Automatically annotate cell types, consistently across samples.

    quadbio/cell-annotator's past year of commit activity
    Python 30 MIT 2 4 2 Updated Oct 12, 2026
  • cellmapper Public

    k-NN-based mapping of cells across representations to transfer labels, embeddings, and expression values.

    quadbio/cellmapper's past year of commit activity
    Python 17 MIT 4 6 2 Updated Oct 12, 2026
  • cell-type-annotation Public

    Evidence-driven cell-type annotation skill for Claude Code

    quadbio/cell-type-annotation's past year of commit activity
    Python 3 MIT 0 4 1 Updated Oct 12, 2026
  • claude-plugins Public

    Claude Code plugin marketplace for quadbio plugins.

    quadbio/claude-plugins's past year of commit activity
    0 MIT 0 0 0 Updated Oct 12, 2026
  • analysis-workflow Public

    Claude Code plugin: conventions, guard hooks and a small package for analysis repos where humans (notebooks) and agents (scripts) work side by side.

    quadbio/analysis-workflow's past year of commit activity
    Python 0 MIT 0 0 1 Updated Oct 12, 2026
  • euler-hpc Public

    Claude Code plugin for working with coding agents on ETH Zurich's Euler HPC cluster: session-start cluster context and a Slurm job skill.

    quadbio/euler-hpc's past year of commit activity
    Shell 0 MIT 0 0 0 Updated Oct 12, 2026
  • sci-figures Public

    Claude Code plugin: Nature-style research figures and legends, with the scifig matplotlib helper package.

    quadbio/sci-figures's past year of commit activity
    Python 0 MIT 0 0 0 Updated Oct 12, 2026
  • analysis_template Public template

    Simple template repo for single-cell/spatial analysis

    quadbio/analysis_template's past year of commit activity
    Jupyter Notebook 2 BSD-3-Clause 0 0 0 Updated Oct 12, 2026
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