gloom/environment.yml at main · omicscodeathon/gloom · GitHub

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name: gloom
channels:
  - conda-forge
  - defaults

dependencies:
  # Python
  - python=3.12

  # ── Core runtime (all available on conda-forge) ───────────────────────────
  - click>=8.1.0
  - pandas>=1.5.0
  - numpy>=1.23.0
  - scipy>=1.9.0
  - statsmodels>=0.14.0
  - scikit-learn>=1.1.0
  - joblib>=1.2.0
  - networkx>=2.8.0
  - matplotlib>=3.6.0

  # ── Optional pipeline features ────────────────────────────────────────────
  - plotly>=5.10.0          # Step 17 — interactive dashboard
  - openpyxl>=3.0.0         # --format excel output
  - imbalanced-learn>=0.11.0  # Step 11 — SMOTE / undersampling

  # ── Build & dev tools ─────────────────────────────────────────────────────
  - pip
  - pytest>=7.0
  - pytest-cov>=4.0
  - black>=23.0
  - ruff>=0.1.0
  - build>=1.0

  # ── pip-only packages (not yet on conda-forge) ────────────────────────────
  - pip:
    - gseapy>=0.10.8        # Step 19 — KEGG enrichment via Enrichr