A complete walkthrough of short-variant calling using GATK4 HaplotypeCaller and DeepVariant — covering alignment, BQSR, variant filtering, and functional annotation with code throughout.
Read moreHow to integrate scRNA-seq, scATAC-seq, and CITE-seq protein data using Seurat v5 and Muon — with a worked example covering alignment, joint embedding, and regulatory interpretation.
Read moreA practical walkthrough of building a neural network to predict gene expression from DNA sequence — covering data preparation, model architecture, training, and interpretation.
Read moreHow to actually implement FAIR (Findable, Accessible, Interoperable, Reusable) data principles in bioinformatics projects — with concrete tools, metadata standards, and code.
Read moreAn accessible introduction to scRNA-seq analysis — from raw reads to cell clusters — with notes on tooling and common pitfalls.
Read moreA practical guide to inferring gene regulatory networks from single-cell and bulk RNA-seq data — comparing GENIE3, SCENIC, and GRNBoost2 with real code and honest caveats.
Read moreA practical introduction to Snakemake — why it matters for reproducible bioinformatics and how to structure your first workflow.
Read moreA deep dive into Nextflow DSL2 — how to design modular, reusable pipeline components that scale from a laptop to an HPC cluster or the cloud.
Read moreA practical guide to building minimal, reproducible Docker images for bioinformatics tools — and converting them to Singularity for HPC use — with real Dockerfiles and CI/CD integration.
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