BIOINF-Y4 — Bioinformatica și Genomică Funcțională (Bachelor, Year 4)

Laboratoare la nivel de licență (anul IV), combinând bioinformatica clasică cu metode moderne de învățare automată, rețele și GenAI.
Mediul este CPU-only și identic între Codespaces și Docker prin imaginea preconstruită ghcr.io/bozdogalex/bioinf-y4-lab:base.

Labs (index)

• 01 — Databases & GitHub: labs/01_intro&databases
• 02 — Sequence Alignment: labs/02_alignment
• 03 — NGS: labs/03_formats&NGS
• 04 — Phylogenetics: labs/04_phylogenetics
• 05 — Clustering: labs/05_clustering
• 06 — WGCNA + Diseasome: labs/06_wgcna
• 07 — Network Viz & GNN: labs/07_network_viz
• 08 — Federated Learning: labs/08_ML_flower
• 09 — Drug Repurposing: labs/09_repurposing
• 10 — Integrative + Digital Twin: labs/10_integrative
• 11 — Multi‑omics + Quantum : labs/11_multiomics
• 12 — Generative AI : labs/12_genAI
• Assignment Presentations

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Full onboarding (screenshots, tips): docs/onboarding.md

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Repo map

• labs/ — all weekly lab content
• docs/ — onboarding, ANIS pack (before/after, one‑pagers, screenshots)
• mlops/ — MLflow helpers
• .devcontainer/ — Codespaces/Devcontainer (pulls GHCR image)
• .github/workflows/ — CI + image publish
• Dockerfile, requirements.txt — env definition
• dev.ps1, Makefile — local helpers

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Docs

Supporting material and submission pack live under docs/:

• Onboarding — Codespaces & Docker setup, smoke test, troubleshooting
• One-pagers — PDF summaries of labs
• Screenshots — environment/UI captures (MLflow, Codespaces, Argo)
• Changelog — changes across versions
• Policies — third-party license references, repository policies
• Resources — recommended readings/tutorials
• GA4GH - ethical & technical standards for sharing biomedical data
• GDPR and Data policy

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MLflow

• See docs/mlflow.md for quick start, Codespaces UI, and troubleshooting.

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Contributing / Policies / Citation

• Contributing — contribution rules & PR tips
• Citation — how to cite this work
• Changelog — changelog (linked from releases)