Skip to content
View clbenoit's full-sized avatar
👋
👋

Highlights

  • Pro

Block or report clbenoit

Block user

Prevent this user from interacting with your repositories and sending you notifications. Learn more about blocking users.

You must be logged in to block users.

Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.
Report abuse

Contact GitHub support about this user’s behavior. Learn more about reporting abuse.

Report abuse
clbenoit/README.md

Hi there! 👋

I'm Clément, a Bioinformatics Engineer specialized in biomedical data, clinical workflows and scientific software development.

I currently work at Grenoble Alpes University Hospital (CHUGA), where I design and maintain computational tools used daily by clinicians and biologists across clinical workflows.

My work focuses on transforming complex biological data into reliable, accessible and reproducible solutions.

I contribute to projects involving:

  • 🧬 Clinical genomics & rare diseases
  • 🧫 Oncology and molecular diagnostics
  • 🦠 Infectious diseases and pathogen analysis
  • 📊 Multi-omics data processing and interpretation

🧠 What I Do

🧬 Bioinformatics & Data Engineering

  • Designing and maintaining production-grade bioinformatics pipelines
  • Developing reproducible workflows for large-scale biological data processing
  • Building ETL pipelines and data systems for biomedical applications
  • Automating analysis workflows to improve reliability and scalability
  • Transforming complex biological datasets into actionable insights

💻 Scientific Software Development

  • Designing interactive web applications for researchers, clinicians and platform users
  • Building user-friendly tools that enable non-technical users to explore and analyze complex biological data
  • Developing reliable interfaces and workflows around genomic and multi-omics analyses
  • Deploying scientific applications in production environments

🤖 AI & Automation

  • Designing AI-assisted workflows for scientific and technical applications
  • Developing and integrating LLM-based tools into real-world workflows
  • Building and deploying agentic systems and automation frameworks
  • Evaluating modern AI architectures for productivity and scientific applications

🧪 Infrastructure & Engineering Practice

I maintain a self-hosted infrastructure used as a personal engineering environment to:

  • design and deploy modern software architectures
  • operate services and applications
  • evaluate AI systems and automation workflows
  • experiment with infrastructure, DevOps practices and emerging technologies

🌐 Technical Communities & Side Projects

I enjoy building and contributing to technical communities around:

  • decentralized technologies
  • open-source software
  • developer tools and infrastructure projects

🌱 About Me

Outside of coding:

  • 🛹 Skateboarding
  • 🌿 Taking care of my plants
  • 🏔️ Exploring the Alps around Grenoble
  • ⚡ Following emerging technologies and engineering practices

🔗 Links


Building bridges between biology, software engineering and data science.

Popular repositories Loading

  1. filt3r.shiny filt3r.shiny Public

    R Shiny app encapsulating FilLT3r tool : https://doi.org/10.1186/s12859-022-04983-6

    R 1

  2. CutOneStrand CutOneStrand Public

    This tool is designed to scan all positions on a gene than can be used to specifically cut one DNA strand using a given cas9.

    Shell 1

  3. GermlineVarDBTools GermlineVarDBTools Public

    An R package containing a tool suite to manage a local structured database for germline genomic variants. The resulting database can be then consulted and annotated with https://github.com/clbenoit…

    R 1

  4. GermlineVarDB GermlineVarDB Public

    R Shiny app for germline genomic variants interpretation. The tool suite to deal with the underlying local structured database is provided here : https://github.com/clbenoit/GermlineVarDBTools

    R

  5. SomaVarDB SomaVarDB Public

    R Shiny app for somatic genomic variants interpretation. The tool suite to deal with the underlying local structured database is provided here : https://github.com/clbenoit/SomaVarDBTools

    R

  6. portfolio portfolio Public

    https://clbenoit.github.io/portfolio/

    TypeScript