CV

• 04.2026 - present

  Clermont-Fd, France

  Researcher

  Laboratoire Microorganismes: Génome et Environnement, CNRS

• 01.2024 - 02.2026

  Clermont-Fd, France

  Research Engineer

  Institut Francais de Bioinformatique & Plateforme AuBi Mésocentre, Université Clermont Auvergne

  Computational Microbiology & Training

  • Computational Microbiology: Multi-omics for antibiotic resistance, Agnostic Microbiome
  • Training: Training curriculum & material development, and course delivery, ELIXIR-FR deputy training coordinator
  • Leadership: Co-lead of the ELIXIR Microbiome Community, Co-lead of a French Microbiology Bioinformatics Community, Co-lead of a French WG to catalog metagenomics resources, (Co-)Principal Investigator in 1 international grant, Work Package technical lead in national project, Advisor of 3 Master 1 internships and 2 Master 2 bibliography projects

• 12.2023 - 01.2023

  Remote

  Director of learning and technology

  OLS (Open Life Science Limited)

  • Technology: Development of an open knowledge management system
  • Learning: Development of a training program on Open Science
  • Leadership: (Co-)Principal Investigator in 3 international grants
  • Non-executive director: Starting from 2024

• 08.2016 - 11.2023

  Freiburg, Germany

  Researcher

  Freiburg Galaxy Team, Bioinformatic Group (Prof. Backofen), University of Freiburg

  Microbiome Data Analysis & Training

  • Agnostic Microbiome: Multi-omics data analysis, Metagenomics assembled genome building, Host-microbiome, Pathogen detection
  • Training and Capacity Building: Training curriculum, material development, and course delivery, Development of Galaxy Training infrastructure, Participation in international training communities and efforts, ELIXIR-DE deputy training coordinator
  • Leadership: Principal Investigator of 1 industry collaboration grant, Work Package lead in 1 European Commission funded grant, Advisor of 1 PhD student, 5 Master thesis, 4 Master (6-month) Projects
  • 10+ invited talks in international events

• 12.2019 - 02.2021

  Freiburg, Germany

  Parental leave

• 01.2015 - 06.2016

  Clermont-Fd, France

  Post-doctoral Researcher

  EA CIDAM, University of Auvergne

  Microbiome Data Analysis

  • Gut Microbiome: Standardized bioinformatic workflows for metagenomic and metatranscriptomic data analysis

• 01.2024 - 02.2026

  Remote

  Non executive director

  OLS (Open Life Science Limited)

• 06.2019 - 12.2022

  Remote

  Co-Founder and co-organizer

  OLS (Open Life Science Limited)

• 2011 - 2014

  Lyon, France

  PhD

  INSA Lyon

  Computational Microbiology

  • Study of reductive evolution of bacterial genomes using in silico experimental evolution and comparative genomics
  • Supervisors: C. Knibbe (LIRIS), G. Beslon (LIRIS), G. Marais (LBBE), V. Daubin (LBBE)

• 2010 - 2011

  Lyon, France

  Master

  ENS Lyon

  Theoretical Computer Science

  • Complex system modelling, Networks, Graph theory

• 2008 - 2011

  Lyon, France

  Master of Engineering

  INSA Lyon

  Bioinformatics & Modelling

  • Bioinformatics, Biology, Biostatistics, Mathematics, Modelling, Computer science

PhD students

Master Thesis

Interns

Student Assistant

Mentoring

• 2024 - Present

  Member of the Galaxy Executive Board

• 2022 - Present

  Co-lead of the ELIXIR Microbiome Community

• 2021 - Present

  Founder and co-lead of the microGalaxy community

• 2017 - Present

  Member of the Galaxy Intergalactic Utilities Commission

• 2024 - 2026

  Co-lead of a French Microbiology Bioinformatics Community

• 2024 - 2026

  Co-lead of a French WG to catalog metagenomics resources

• 2024 - 2026

  WP technical lead in ABRomics (French national project)

• 2024 - 2026

  Co-deputy training coordinator for ELIXIR France

• 2022 - 2023

  Co-lead of the Galaxy Mentor Network

• 2022 - 2023

  Member of the GOBLET Executive Board

• 2019 - 2026

  Co-founder and co-director of OLS

• 2019 - 2022

  Co-deputy training coordinator for ELIXIR Germany

• 2019 - 2022

  Co-founder and co-lead of the Street Science Community

• 2016 - 2023

  Co-lead of the Galaxy Training Network

Editorial

• 2024 - Present

  Editorial Board Member for BMC Bioinformatics

• 2026

  Associate Editor for a paper in BMC Supplements

• 2021 - Present

  Advisor for Galaxy Gateway at F1000

Ad hoc reviewer

• Journals: Bioinformatics Advances, Trends in Ecology and Evolution, BMC Microbiology, GigaScience, Bioinformatics
• Conferences: RECOMB, ECCB, GCC
• Grant Proposals: OSCARS cascading grants, Sloan Foundation

PhD Thesis

• 2021

  Reviewer of PhD Thesis : Giulia Agostinetto (University of Milan, Italy)

• 2018

  Participation in Ph.D. Advisory Committee : Jeanne Bazille (INRA Theix, France)

Selection Committees

• 2018

  Engineer Selection Committee (INRAE, France)

Scientific committee

• 2023

  Galaxy Community Conference

• 2022

  Galaxy Community Conference

• 2018

  GCCBOSC Galaxy User Conference Freiburg

Organization committee

• 10+ Hackathons / Collaborative work events, 20+ Training workshops and events at national and European levels, including Train the Trainers

• 2026

  Galaxy Community Conference

• 2023

  GTN Smörgåsbord (Global virtual Galaxy Course)

• 2022

  GTN Smörgåsbord (Global virtual Galaxy Course)

• 2021

  GTN Smörgåsbord (Global virtual Galaxy Course)

• 2019

  Galaxy Community Conference

Under- and graduate courses

• 08.2016 - 11.2023

  Bioinformatic lectures to Computer Science master students

  University of Freiburg, Freiburg, Germany

• 01.2015 - 06.2016

  Computer science & Bioinformatic lectures

  IUT Aurillac, France

• 10.2011 - 11.2014

  Programming practical courses to bachelor and master students

  INSA Lyon, Lyon, France

Short-term training delivery activities

• 50+ developed tutorials, 20+ workshops as instructor and/or organizer

• 2025

  • Galaxy Training Academy: Microbiome
    5-day / Online & Asynchronous
  • Artificial Intelligence and Machine Learning in Life Sciences: from foundations to applications
    5-day / Aussois, France
  • Metagenomics and metatranscriptomics data analysis using Galaxy
    2-day / Lyon, France

• 2024

  • ABRomics introduction
    2 half-day / Paris, France
  • Introduction to microbial data analysis using Galaxy
    Half-day / Clermont-Ferrand, France (Monthly)
  • Galaxy Training Academy: Microbiome, Bacterial Genomics
    5-day / Online & Asynchronous (1 / year)

• 2023

  • BioNT: A practical introduction to bioinformatics and RNA-seq using Galaxy
    5 half-day / Online
  • ELIXIR-GOBLET & Gallantries Train-the-Trainers
    4 half-day / Online
  • A practical workshop for (foodborne) pathogen detection from (direct Nanopore) sequencing data using Galaxy
    1-day / Switzerland & Online
  • GTN Smörgåsbord: Microbiome
    5-day / Online & Asynchronous

• 2022

  • Gallantries Train-the-Trainers
    2-day / Online
  • ELIXIR Train-the-Trainers
    2-day / Belgium & Online
  • GTN Smörgåsbord: RNA-seq
    5-day / Online & Asynchronous
  • RNA-seq data analysis using Galaxy
    2-day / Freiburg, Germany

• 2021

  • GTN Smörgåsbord: RNA-seq
    5-day / Online & Asynchronous
  • Women in Data Science – Perspectives in Industry and Academia
    0.5-day / Online

• 2019

  • RNA-seq workshop for beginners: from sequence to visualisations using Galaxy and R
    2-day / Online (x2)
  • Galaxy for Training and Education
    2.5 h / Galaxy Community Conference, Freiburg, Germany
  • Open source project management
    2.5 h / Galaxy Community Conference, Freiburg, Germany
  • RNA-seq data analysis using Galaxy
    2-day / Belgrade, Serbia
  • HTS analysis using Galaxy
    5-day / Freiburg, Germany (1-2/year)

• 2018

  • Data Carpentry workshop
    2-day / Dublin, Ireland
  • Metagenomics data analysis
    0.5-day / Galaxy Africa, Cape Town, South Africa
  • Galaxy for Training and Education
    2.5 h / GBCC, Portland, USA
  • HTS analysis using Galaxy
    5-day / Freiburg, Germany (1-2/year)
  • RNA-seq data analysis using Galaxy
    2-day / Freiburg, Germany

• 2017

  • Software Carpentry Workshop
    2-day / EMBL, Heidelberg, Germany
  • Tool development and integration into Galaxy; Galaxy Interactive Tour
    5-day / European Galaxy Developer Workshop, Strasbourg, France
  • 1st Freiburg Software Carpentry Workshop
    2-day / Freiburg, Germany
  • Metagenomics data analysis
    0.5-day / Galaxy Community Conference, Montpellier, France
  • RNA-seq data analysis using Galaxy
    1-day / Mainz, Germany
  • HTS data analysis using Galaxy
    5-day / Freiburg, Germany (2/year)

• 2016

  • Docker for beginners
    3rd Systems Biology Developers Foundry, Frankfurt, Germany
  • Tool integration in Galaxy environment
    Clermont-Ferrand, France
  • RNA-seq data analysis using Galaxy
    2-day / Freiburg, Germany
  • HTS data analysis using Galaxy
    5-day / Freiburg, Germany (2/year)

Public engagement

• 2019 - 2022

  Co-founder and co-lead of Street Science Community, an initiative for interactive, accessible, public-space science outreach

• 2019

  Talk about Beer Microbiome at Pint of Science

• 2015 - 2018

  Contributor to bioinfo-fr.net, a collaborative french bioinformatic blog

Selected invited talks

• 2024

  • Exploring the Microbiome with Galaxy: Tools, Workflows, and Applications
    Journée Thématique 'Métagénomique, Microbiome et ADN environnemental' - Groupe de Travail 'Statistique et Génomique' - Réseau Interdisciplinaire autour de la Statistique, Online

• 2022

  • Galaxy for your data analysis!
    EMBL-EBI / Wellcome Trust Bioinformatics Summer School, Online

• 2021

  • How I developed my career in data science: role models, training, mentoring and community
    Women in Data Science 2021 - Bayer AG & de.NBI/ELIXIR Germany Event, Online
  • Galaxy for microbiome
    Functional microbiome analysis training, Online

• 2020

  • Empowering usable, and comprehensive bioinformatic training
    ISMB / ISCB Education COSI, Online

• 2019

  • The training effort of the Galaxy community
    ELIXIR Bioinformatics Training Tools Workshop, Debrecen, Hungary

• 2018

  • Community-driven training for biological data analysis with the Galaxy Training Network
    Galaxy Africa, Cape Town, South Africa
  • The daily life of a bioinformatician: multi-faceted computational analysis of a biological system
    Basel Computational Biology Seminar, Basel, Switzerland

Awards

• 2023

  • Best Poster : Accessible and Scalable Pipelines for Fast and Easy (Foodborne) Pathogens Detection and Tracking.
    German Bioinformatic Conference, Hamburg, Germany
  • Best Poster : Establishing the ELIXIR Microbiome Community.
    ELIXIR All Hands Meeting, Dublin, Ireland

• 2011

  • PhD Scholarship