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Reproducible Research & FAIR Data Training | Snakemake/Nextflow, Containers, Provenance & RO-Crate

Build FAIR, reproducible genomics pipelines with Snakemake, Conda, containers, provenance, versioning, QC dashboards, and submission-ready documentation.

NTHRYS >> Services >> Academic Services >> Training Programs >> Bioinformatics Training >> Genomics, Transcriptomics, Molecular Systems

Reproducible Research & FAIR Data — Hands-on

Gain expertise in designing FAIR and reproducible genomics workflows—versioning, environments, containers, provenance, automated QA dashboards, and submission-ready docs.

Reproducible Research & FAIR Data
Help Desk · WhatsApp
Session 1
Fee: Rs 6300
FAIR Principles & Version Control
  • FAIR: Findable, Accessible, Interoperable, Reusable—practical checklists
    • Theory
  • Git essentials, branching models, releases and semantic versioning
    • Git GitHub/GitLab Semantic Versioning
  • Data & code citation, README/CONTRIB, LICENSE, DOI minting
    • CITATION.cff Zenodo REUSE.software
Session 2
Fee: Rs 8400
Environments & Containers
  • Deterministic environments with Conda/Mamba; locking and export
    • Conda Mamba Micromamba
  • Containerization and reproducible runners for HPC/Cloud
    • Docker Apptainer/Singularity Podman
  • Data packaging, checksums, manifests and integrity audits
    • sha256sum RO-Crate BagIt
Session 3
Fee: Rs 11200
Workflow Engines & Provenance
  • Portable pipelines with Snakemake/Nextflow; config, profiles, CI/CD
    • Snakemake Nextflow GitHub Actions
  • Provenance tracking & audit trails; parameter hashing and logs
    • MLflow/Weights & Biases checksum manifests
  • QC dashboards & results notebooks for review and reuse
    • MultiQC Quarto JupyterLab
Session 4
Fee: Rs 14000
Mini Capstone: Reproducible Bundle
  • Design a FAIR-compliant, containerized pipeline with full provenance
    • Theory
  • Automate ingest→QC→analyze→report and export an archival bundle
    • Snakemake Conda/Apptainer Quarto/MultiQC
  • Deliver RO-Crate/BagIt bundle, manifest, checksums and README set
    • RO-Crate BagIt Zenodo DOI