Scientific Technical Consulting & Research Software Engineering
Architecture, deployment, and modernization of open science & data platforms (Kubernetes, general cloud services, elastic / serverless bursting, Galaxy, Bioconductor, AnVIL, reproducible analytics).
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Core Open Science Engineering Roles
Bioconductor
One of 5 Core Engineers: container strategy, cloud build pipelines, identity & training infrastructure.
Galaxy Project
Kubernetes / Cloud team: Helm & deployment stacks, CVMFS-CSI, secure scalable CI/CD pipelines.
NHGRI AnVIL
Former lead engineer & project manager: integrating Galaxy & Bioconductor into secure Terra (GCP/Azure).
Capabilities
From architecture to delivery: reproducible, automated, production-ready research software systems.
Cloud Architecture & Scaling
Designing portable infrastructure across GCP, AWS, Azure, Jetstream2; elastic & serverless bursting strategies.
Workflow & Analysis Platforms
Galaxy, Bioconductor, RStudio, Jupyter—optimized for scalability & reproducibility.
Container & Binary Supply
Automated image & binary pipelines (Helm, GitHub Actions, deb packaging, container hardening).
Identity & Multi-Tenant Training
Keycloak-backed ephemeral workshop clusters & controlled access environments.
Modernization & Audits
Assess, streamline, automate legacy infrastructure—reduce toil & fragility.
Knowledge Transfer
Documentation-first mentoring & handover to internal teams for sustainable ownership.
Example Project Types
Typical engagements where I provide architectural guidance, implementation, and sustainable handover.
Cloud Platform Modernization
Refactor legacy static servers into automated, reproducible Kubernetes + cloud-native & serverless architectures.
Galaxy / Workflow Deployment
Production or training instances with scalable job execution, object storage, identity, and optional burst compute.
Bioconductor Cloud Enablement
Container, binary, & package pipelines; multi-cloud CI; workshop environment provisioning.
Secure Training Platforms
Ephemeral multi-tenant workshop clusters with Keycloak IAM and automated lifecycle.
Container & Binary Supply Chains
Hardened images, deb packaging (bioc2u), GPU builds, provenance & reproducibility pipelines (supports burst contexts).
Architecture & Roadmapping
Translate scientific objectives into phased technical plans with measurable milestones.
Ready to discuss your platform?
Email almahmoud.research@gmail.com with a short description of goals & timeline.
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