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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

    285 84

  2. Pando Pando Public

    Multiome GRN inference.

    R 146 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 51 6

  5. RNAseq_tutorial RNAseq_tutorial Public

    50 16

  6. simspec simspec Public

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

    R 42 3

Repositories

Showing 10 of 69 repositories
  • 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 Nov 13, 2026
  • scembed Public

    Run embedding comparisons for single-cell data

    quadbio/scembed's past year of commit activity
    Python 6 MIT 2 0 0 Updated Nov 13, 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 3 0 Updated Nov 13, 2026
  • slurm_sweep Public

    Hyperparameter sweeps on SLURM clusters

    quadbio/slurm_sweep's past year of commit activity
    Python 6 MIT 2 1 0 Updated Nov 13, 2026
  • claude-plugins Public

    Claude Code plugin marketplace for quadbio plugins.

    quadbio/claude-plugins's past year of commit activity
    1 MIT 1 0 0 Updated Nov 10, 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 1 0 0 Updated Nov 10, 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 18 MIT 4 10 2 Updated Nov 9, 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 Nov 9, 2026
  • scviva-tools-diagvi-fix Public Forked from YosefLab/scviva-tools

    scVIVA-Tools: A unified toolkit for spatial transcriptomics analysis

    quadbio/scviva-tools-diagvi-fix's past year of commit activity
    Python 0 BSD-3-Clause 3 0 0 Updated Nov 5, 2026
  • scvi-tools-public Public Forked from scverse/scvi-tools

    Deep probabilistic analysis of single-cell and spatial omics data

    quadbio/scvi-tools-public's past year of commit activity
    Python 0 BSD-3-Clause 493 0 0 Updated Nov 5, 2026
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