01Published
CONCORD
Python · PyTorch
A scalable framework for batch integration, denoising, and topology-aware dimensionality reduction across complex single-cell datasets.
Selected software
Research tools shown through the work they enable.
I build open-source tools for single-cell analysis, statistical inference, and interactive biological exploration.
02Published
deMULTIplex2
R · EM · GLM
Probabilistic sample assignment and doublet detection for multiplexed single-cell RNA-seq, built to remain robust under noisy and unbalanced tag counts.
03Published
PIVOT
R · Shiny · JavaScript
A platform for interactive transcriptomics analysis with graphical data-provenance tracking, integrated statistical tools, reproducible reports, and shareable analysis states.
04Published atlas
KidneyCellExplorer
R · Shiny · VisCello
An interactive map of adult mouse kidney cell diversity, linking anatomical groupings, gene expression, and ontology-aware metacells.
05Published atlas platform
VisCello
R · Shiny
An interactive environment for exploring large single-cell datasets through embeddings, expression views, differential analysis, and reusable subsets.
06Published
SCRABBLE
R · MATLAB
Single-cell RNA-seq imputation constrained by matched bulk RNA-seq data, designed to recover dropout events while preserving expression relationships.
07Published
scATAC-pro
Bash · R
An end-to-end workbench for single-cell chromatin-accessibility data, from read processing and quality control to clustering, motifs, and regulatory analysis.