06/26/2026 updated
100 % available
Cloud & HPC Engineer | Bioinformatician
Angers, USA
Only remote
Master's degree, Molecular and Cellular Biology - Sorbonne University, Paris (2012-2014)About me
I have spent the past 10+ years building automated pipelines for scientific computing projects. I help design and operate cloud and HPC environments, combining modern infrastructure tools (Terraform, Ansible, Docker, AWS) with the scientific computing stack (Slurm, Nextflow, Apptainer).
Java (Programming Language)Amazon Elastic Compute CloudBioinformaticsCloud ComputingCloud Computing SecurityCloud EngineeringVirtual Private ServersLinuxDistributed Computing EnvironmentGenomicsR (Programming Language)Hyper-VVirtual Private Networks (VPN)Python (Programming Language)Windows Servers
Cloud & Infrastructure as Code
Expertise in Terraform, Ansible, AWS (EC2, S3, IAM, VPC, CloudWatch Logs) and Git/GitHub for designing and operating reproducible, secure, and scalable cloud environments.
HPC & Scientific Workflows
Extensive experience with HPC environments (Slurm, SGE), scientific workflow tools such as Nextflow and Snakemake, and environment management with Conda/Mamba for large-scale bioinformatics pipelines.
Containerization
Proficiency in Docker, Docker Compose, and Apptainer/Singularity for building and deploying containerized scientific and infrastructure workloads.
Systems & Administration
Strong background in Linux (Ubuntu, administration, scripting), Windows Server, Active Directory (GPO, LDAP), Hyper-V, and VirtualBox for managing complex IT environments.
Networking & Web Services
Knowledge of TCP/IP, IPv4/IPv6, DNS, DHCP, VLAN, VPN, Nginx, and Apache for configuring and maintaining network infrastructure and web services.
Security
Application of IAM, HTTPS/TLS, and system and container hardening practices to ensure secure infrastructure deployments.
Development & Scripting
Programming and scripting capabilities in Bash, Python, PowerShell, R, Java, and SQL for automation and data processing tasks.
Monitoring, Backup & Operations
Use of Nagios, Rsyslog, GLPI, rsync, cron, and Rclone for monitoring, backup, and operational management of IT systems.
Bioinformatics Analysis
Hands-on experience in genomics, population genomics, genome assembly, RNA sequencing analysis, and metagenomic sequencing data analysis for academic and industrial clients.
Expertise in Terraform, Ansible, AWS (EC2, S3, IAM, VPC, CloudWatch Logs) and Git/GitHub for designing and operating reproducible, secure, and scalable cloud environments.
HPC & Scientific Workflows
Extensive experience with HPC environments (Slurm, SGE), scientific workflow tools such as Nextflow and Snakemake, and environment management with Conda/Mamba for large-scale bioinformatics pipelines.
Containerization
Proficiency in Docker, Docker Compose, and Apptainer/Singularity for building and deploying containerized scientific and infrastructure workloads.
Systems & Administration
Strong background in Linux (Ubuntu, administration, scripting), Windows Server, Active Directory (GPO, LDAP), Hyper-V, and VirtualBox for managing complex IT environments.
Networking & Web Services
Knowledge of TCP/IP, IPv4/IPv6, DNS, DHCP, VLAN, VPN, Nginx, and Apache for configuring and maintaining network infrastructure and web services.
Security
Application of IAM, HTTPS/TLS, and system and container hardening practices to ensure secure infrastructure deployments.
Development & Scripting
Programming and scripting capabilities in Bash, Python, PowerShell, R, Java, and SQL for automation and data processing tasks.
Monitoring, Backup & Operations
Use of Nagios, Rsyslog, GLPI, rsync, cron, and Rclone for monitoring, backup, and operational management of IT systems.
Bioinformatics Analysis
Hands-on experience in genomics, population genomics, genome assembly, RNA sequencing analysis, and metagenomic sequencing data analysis for academic and industrial clients.
Experience
Professional experience10+ years
Freelancer since2017
Languages
EnglishFluentFrenchNative speaker
Project history
Consulting and development projects for biotech companies, clinical research organisations, and academic institutions. Engagements included building a Bash/Nextflow pipeline on an HPC cluster for OSE Immunotherapeutics, consulting on a SaaS workflow on Azure for personalised medicine in oncology for Omicure in collaboration with SOPHiA GENETICS, developing a Bash pipeline on AWS for metagenomic sequencing data analysis for Royal Canin, setting up a Conda environment on an HPC cluster for cell population inference for the Vall d Hebron Institute of Oncology, and delivering bioinformatics training for the French Institute of Bioinformatics.
Development of a workflow for fungal genome sequencing data analysis (Bash), population genomics data analysis, and genome assembly from long-read sequencing data (PacBio) at Grignon, France.
Development of a workflow to detect transcript fusions from RNA sequencing data (Python/Bash) and analysis of targeted DNA sequencing data and detection of genomic variants at Villejuif, France.