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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, ≥30×).

    Python 2

  6. hg38annotate hg38annotate Public

    Annotation of VCF files including IGV and html report

    Python