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1. pgx-suite pgx-suite Public

   A Docker container that bundles six pharmacogenomics (PGx) callers — PyPGx, Stargazer, Aldy, StellarPGx, OptiType, and mutserve — pre-configured for GRCh38 (hg38). One command runs every applicable...

   Python

2. scRNA scRNA Public

   A modular, end-to-end single-cell RNA-seq analysis pipeline built on Seurat v5. Supports single-sample and multi-sample (Harmony-integrated) workflows with automated cell type annotation, publicati...

   R

3. HLA HLA Public

   Python pipeline verifying Singapore BMDP+SCBB HLA allele/haplotype frequencies (n=59,186) and modelling bone marrow donor registry size targets for CMIO populations

   Python

4. PathogenIQ PathogenIQ Public

   PathogenIQ is a lightweight clinical metagenomics analysis platform that ingests NGS sequencing data, performs QC, human host removal, and rapid pathogen identification against a tiered curated dat...

   Python

5. SVcaller SVcaller Public

   A production-ready Nextflow DSL2 pipeline for calling structural variants (SVs), copy number variants (CNVs), and SMN1/SMN2 copy numbers from paired-end WGS data (PE150, ×ばつ).

   Python 2

6. poly-suite poly-suite Public

   Evidence-graded, ancestry-calibrated polygenic risk score pipeline: a WGS BAM/VCF in, a graded, absolute-risk, consensus-verified multi-trait PGS report out.

   Python