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paribytes/README.md

Hi, I'm Priyanshi - a computational biologist working at the intersection of genomics, machine learning, and clinical impact.

I'm currently at the Sethuraman Lab at SDSU, where I work on genome assembly and annotation for hops (Humulus lupulus) and large-scale NGS pipeline development. Past projects include a telomere biomarker classifier across 8,500+ cancer samples (TCGA) and a population-scale telomere length pipeline across 2,300+ whole genomes from the 1000 Genomes Project. I've also built out an HPC assembly pipeline (MaSuRCA + RagTag) for hop genomes, working through real-world constraints like memory-limited scaffolding steps and cluster-specific dependency issues.

🛠️ My stack: Python · R · Bash · Snakemake · Nextflow · HPC (SLURM/PBS) · AWS · scikit-learn

📄 Publications:

  • Shah & Sethuraman. Biology Methods and Protocols, 2025
  • Shah & Sethuraman. bioRxiv, 2025 (under review)

💼 Open to bioinformatics scientist and computational biology roles with direct clinical impact

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  1. TeloTales TeloTales Public

    Reproducible bioinformatics pipeline for estimating telomere content from whole-genome sequencing (WGS) data from the 1000 Genomes Project.

    Python

  2. TeloQuest TeloQuest Public

    Reproducible machine learning pipeline for predicting tumor status from telomere content variation and genomic variants, using whole-genome sequencing (BAM) data from The Cancer Genome Atlas (TCGA).

    Jupyter Notebook 1

  3. julian-gold-hops-assembly julian-gold-hops-assembly Public

    MaSuRCA + RagTag genome assembly pipeline for Humulus lupulus cv. Julian Gold

    Shell