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@stjude-dnb-binfcore

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AntoniaChroni/README.md

Hi, I’m Tonia 😊

I am an evolutionary computational biologist by training, with extensive expertise in molecular evolution, phylogenetics, ecology, and biogeography in the context of both species and cancer. I work at the intersection of computational biology, software engineering, and reproducible pipeline development, with a focus on single‑cell and cancer research.

👩🏻‍💻 Currently a Lead Bioinformatics Research Scientist at the St. Jude Children’s Research Hospital

📊️ Support project analysis

🚀 Build and automate computational workflows and pipelines

🧬 Extensive experience with WGS/WES, sc-RNA-Seq, sc-ATAC-Seq and sc-TCR/BCR-Seq analysis in the context of tumor evolution and microenvironment

👷 Passionate about computation, automation and reproducibility for scientists


Here’s some stats on my GitHub repos

GitHub only counts personal, non-forked/public repos—organization and forked repos are excluded by default.


🛠 Skills & Technologies I Use

These cover work across personal, forked, and org repos:

  • Programming Languages:
    • Bash/ Shell 🖥️
    • Markdown / YAML 🧾
    • Python 🐍
    • R 📊
  • Containerization & Workflow Tools:
    • Docker
    • Singularity
  • Version Control & CI/CD:
    • Git
    • GitHub (Actions, Packages, Workflows)

😃 For more details on my work and research, please visit my digital 🏠 or my LinkedIn 🏠 or Google scholar profile.

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  1. stjude-dnb-binfcore/sc-rna-seq-snap stjude-dnb-binfcore/sc-rna-seq-snap Public

    Automated and containerized workflow for 10X single cell and single nuclei RNA (sc/snRNA) data.

    R 2 88

  2. stjude-dnb-binfcore/sc-epigenie stjude-dnb-binfcore/sc-epigenie Public

    Automated and containerized workflow for 10X single-cell ATAC (scATAC-Seq) data.

    R 1 18

  3. stjude-dnb-binfcore/sc-rna-seq-snap-10x-Flex stjude-dnb-binfcore/sc-rna-seq-snap-10x-Flex Public

    Automated and containerized workflow for 10X Flex single cell and single nuclei RNA (sc/snRNA) data.

    R 7

  4. stjude-dnb-binfcore/trainings stjude-dnb-binfcore/trainings Public

    HTML 1

  5. sc-atac-seq-bed-builder sc-atac-seq-bed-builder Public

    Forked from stjude-dnb-binfcore/sc-atac-seq-bed-builder

    Automated workflow for generating reference bed files for 10x single-cell ATAC (scATAC-Seq) data.

    Python

  6. devops-containers devops-containers Public

    Forked from stjude-dnb-binfcore/devops-containers

    This repository contains reusable containers used across pipelines, which can also be independently utilized in other projects.

    HTML