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

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Session Index

Session 1 — FAIR Principles & Version Control Session 2 — Environments & Containers Session 3 — Workflow Engines & Provenance Session 4 — Mini Capstone: Reproducible Bundle

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

PDF

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

Reproducible Research & FAIR Data — Hands-on