@nahisaho/satori 0.25.5 → 0.27.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (90) hide show
  1. package/README.md +57 -1
  2. package/bin/satori.js +761 -33
  3. package/package.json +32 -2
  4. package/src/.github/skills/scientific-academic-writing/SKILL.md +10 -0
  5. package/src/.github/skills/scientific-active-learning/SKILL.md +10 -0
  6. package/src/.github/skills/scientific-adaptive-experiments/SKILL.md +10 -0
  7. package/src/.github/skills/scientific-advanced-imaging/SKILL.md +10 -0
  8. package/src/.github/skills/scientific-advanced-visualization/SKILL.md +10 -0
  9. package/src/.github/skills/scientific-anomaly-detection/SKILL.md +10 -0
  10. package/src/.github/skills/scientific-automl/SKILL.md +10 -0
  11. package/src/.github/skills/scientific-bayesian-statistics/SKILL.md +10 -0
  12. package/src/.github/skills/scientific-biobank-cohort/SKILL.md +10 -0
  13. package/src/.github/skills/scientific-biosignal-processing/SKILL.md +10 -0
  14. package/src/.github/skills/scientific-causal-inference/SKILL.md +10 -0
  15. package/src/.github/skills/scientific-causal-ml/SKILL.md +10 -0
  16. package/src/.github/skills/scientific-clinical-nlp/SKILL.md +10 -0
  17. package/src/.github/skills/scientific-clinical-pharmacology/SKILL.md +10 -0
  18. package/src/.github/skills/scientific-clinical-standards/SKILL.md +11 -0
  19. package/src/.github/skills/scientific-crispr-design/SKILL.md +10 -0
  20. package/src/.github/skills/scientific-critical-review/SKILL.md +10 -1
  21. package/src/.github/skills/scientific-data-preprocessing/SKILL.md +10 -0
  22. package/src/.github/skills/scientific-data-profiling/SKILL.md +10 -0
  23. package/src/.github/skills/scientific-data-simulation/SKILL.md +10 -0
  24. package/src/.github/skills/scientific-data-submission/SKILL.md +10 -0
  25. package/src/.github/skills/scientific-deep-chemistry/SKILL.md +10 -0
  26. package/src/.github/skills/scientific-deep-learning/SKILL.md +10 -0
  27. package/src/.github/skills/scientific-doe/SKILL.md +10 -0
  28. package/src/.github/skills/scientific-eda-correlation/SKILL.md +10 -0
  29. package/src/.github/skills/scientific-ensemble-methods/SKILL.md +10 -0
  30. package/src/.github/skills/scientific-explainable-ai/SKILL.md +10 -0
  31. package/src/.github/skills/scientific-feature-importance/SKILL.md +10 -0
  32. package/src/.github/skills/scientific-federated-learning/SKILL.md +10 -0
  33. package/src/.github/skills/scientific-geospatial-analysis/SKILL.md +10 -0
  34. package/src/.github/skills/scientific-glycomics/SKILL.md +10 -0
  35. package/src/.github/skills/scientific-gpu-singlecell/SKILL.md +10 -0
  36. package/src/.github/skills/scientific-hgnc-nomenclature/SKILL.md +10 -0
  37. package/src/.github/skills/scientific-hypothesis-pipeline/SKILL.md +10 -1
  38. package/src/.github/skills/scientific-image-analysis/SKILL.md +10 -0
  39. package/src/.github/skills/scientific-interactive-dashboard/SKILL.md +10 -0
  40. package/src/.github/skills/scientific-lab-automation/SKILL.md +10 -0
  41. package/src/.github/skills/scientific-latex-formatter/SKILL.md +10 -0
  42. package/src/.github/skills/scientific-lipidomics/SKILL.md +10 -0
  43. package/src/.github/skills/scientific-materials-characterization/SKILL.md +10 -0
  44. package/src/.github/skills/scientific-md-simulation/SKILL.md +10 -0
  45. package/src/.github/skills/scientific-medical-imaging/SKILL.md +10 -0
  46. package/src/.github/skills/scientific-metabolic-atlas/SKILL.md +11 -0
  47. package/src/.github/skills/scientific-metabolic-flux/SKILL.md +10 -0
  48. package/src/.github/skills/scientific-metabolomics-network/SKILL.md +10 -0
  49. package/src/.github/skills/scientific-metagenome-assembled-genomes/SKILL.md +10 -0
  50. package/src/.github/skills/scientific-missing-data-analysis/SKILL.md +10 -0
  51. package/src/.github/skills/scientific-ml-classification/SKILL.md +10 -0
  52. package/src/.github/skills/scientific-ml-regression/SKILL.md +10 -0
  53. package/src/.github/skills/scientific-model-monitoring/SKILL.md +10 -0
  54. package/src/.github/skills/scientific-multi-task-learning/SKILL.md +10 -0
  55. package/src/.github/skills/scientific-nci60-screening/SKILL.md +10 -0
  56. package/src/.github/skills/scientific-network-visualization/SKILL.md +10 -0
  57. package/src/.github/skills/scientific-neural-architecture-search/SKILL.md +10 -0
  58. package/src/.github/skills/scientific-neuroscience-electrophysiology/SKILL.md +10 -0
  59. package/src/.github/skills/scientific-paper-quality/SKILL.md +10 -0
  60. package/src/.github/skills/scientific-pca-tsne/SKILL.md +10 -0
  61. package/src/.github/skills/scientific-peer-review-response/SKILL.md +10 -0
  62. package/src/.github/skills/scientific-perturbation-analysis/SKILL.md +10 -0
  63. package/src/.github/skills/scientific-phylogenetics/SKILL.md +10 -0
  64. package/src/.github/skills/scientific-pipeline-scaffold/SKILL.md +10 -0
  65. package/src/.github/skills/scientific-plant-biology/SKILL.md +10 -0
  66. package/src/.github/skills/scientific-presentation-design/SKILL.md +10 -0
  67. package/src/.github/skills/scientific-process-optimization/SKILL.md +10 -0
  68. package/src/.github/skills/scientific-publication-figures/SKILL.md +10 -0
  69. package/src/.github/skills/scientific-quantum-computing/SKILL.md +10 -0
  70. package/src/.github/skills/scientific-radiology-ai/SKILL.md +10 -0
  71. package/src/.github/skills/scientific-reinforcement-learning/SKILL.md +10 -0
  72. package/src/.github/skills/scientific-reproducible-reporting/SKILL.md +10 -0
  73. package/src/.github/skills/scientific-research-methodology/SKILL.md +10 -0
  74. package/src/.github/skills/scientific-revision-tracker/SKILL.md +10 -0
  75. package/src/.github/skills/scientific-scatac-signac/SKILL.md +10 -0
  76. package/src/.github/skills/scientific-scvi-integration/SKILL.md +10 -0
  77. package/src/.github/skills/scientific-semi-supervised-learning/SKILL.md +10 -0
  78. package/src/.github/skills/scientific-spatial-multiomics/SKILL.md +10 -0
  79. package/src/.github/skills/scientific-spectral-signal/SKILL.md +10 -0
  80. package/src/.github/skills/scientific-squidpy-advanced/SKILL.md +11 -0
  81. package/src/.github/skills/scientific-statistical-simulation/SKILL.md +10 -0
  82. package/src/.github/skills/scientific-statistical-testing/SKILL.md +10 -0
  83. package/src/.github/skills/scientific-streaming-analytics/SKILL.md +10 -0
  84. package/src/.github/skills/scientific-supplementary-generator/SKILL.md +10 -0
  85. package/src/.github/skills/scientific-symbolic-mathematics/SKILL.md +10 -0
  86. package/src/.github/skills/scientific-time-series/SKILL.md +10 -0
  87. package/src/.github/skills/scientific-time-series-forecasting/SKILL.md +10 -0
  88. package/src/.github/skills/scientific-toxicology-env/SKILL.md +10 -0
  89. package/src/.github/skills/scientific-transfer-learning/SKILL.md +10 -0
  90. package/src/.github/skills/scientific-uncertainty-quantification/SKILL.md +10 -0
package/README.md CHANGED
@@ -3,11 +3,12 @@
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  **SATORI** は、科学データ解析のための **GitHub Copilot Agent Skills** コレクションです。
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  [![npm version](https://img.shields.io/npm/v/@nahisaho/satori)](https://www.npmjs.com/package/@nahisaho/satori)
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+ [![CI](https://github.com/nahisaho/satori/actions/workflows/ci.yml/badge.svg)](https://github.com/nahisaho/satori/actions/workflows/ci.yml)
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  [![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](LICENCE)
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  ## Overview
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- このディレクトリには、Exp-01〜13 で蓄積した科学データ解析技法を Agent Skills として体系化した **190 個**のスキルを格納しています。Copilot がプロンプトの文脈に応じて適切なスキルを自動ロードし、各実験で確立した解析パターンを再利用します。131 のスキルは [ToolUniverse](https://github.com/mims-harvard/ToolUniverse) SMCP 経由で 1,200 以上の外部科学データベースツールとも連携可能です。
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+ このディレクトリには、Exp-01〜13 で蓄積した科学データ解析技法を Agent Skills として体系化した **190 個**のスキルを格納しています。Copilot がプロンプトの文脈に応じて適切なスキルを自動ロードし、各実験で確立した解析パターンを再利用します。全 190 スキルが [ToolUniverse](https://github.com/mims-harvard/ToolUniverse) SMCP 経由で 1,200 以上の外部科学データベースツールと連携可能です。
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  ### パイプラインフロー
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  `.github/skills/` がカレントディレクトリにコピーされ、Copilot Agent Mode で即座に利用できます。
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+ ### CLI コマンド一覧
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+
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+ | コマンド | 説明 |
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+ |---|---|
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+ | `satori init [--force] [--dry-run]` | `.github/skills/` をカレントディレクトリにインストール |
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+ | `satori pipeline suggest` | キーワードでインタラクティブにパイプラインを推薦 |
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+ | `satori pipeline list` | 全 26 ドメインパイプラインを一覧表示 |
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+ | `satori validate [--verbose]` | 全 190 SKILL.md を自動検証 |
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+ | `satori stats` | スキル数・TU カバレッジなどの統計表示 |
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+ | `satori help` | ヘルプ表示 |
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+ | `satori --version` | バージョン表示 |
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  ---
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  ## 使い方
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  ---
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+ ## 開発
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+ ### 前提条件
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+ - Node.js >= 18
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+ ### セットアップ
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+ ```bash
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+ git clone https://github.com/nahisaho/satori.git
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+ cd satori
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+ npm install
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+ ```
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+ ### テスト
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+ ```bash
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+ npm test # 全テスト実行 (1,359 テスト)
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+ npm run test:unit # CLI ユニットテストのみ (24 テスト)
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+ npm run test:validation # SKILL.md 検証テストのみ (1,335 テスト)
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+ npm run test:coverage # カバレッジ付き実行
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+ npm run test:watch # ウォッチモード
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+ ```
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+ ### リント・フォーマット
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+ ```bash
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+ npm run lint # Biome lint チェック
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+ npm run lint:fix # 自動修正
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+ npm run format # コードフォーマット
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+ ```
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+ ### CI
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+ GitHub Actions で以下の 4 ジョブが `main` ブランチへの push / PR 時に実行されます:
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+ - **test**: Node.js 18/20/22 マトリクスでの全テスト実行
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+ - **validate-skills**: 全 SKILL.md フォーマット検証
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+ - **cli-smoke**: CLI コマンドのスモークテスト
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+ - **lint**: Biome によるコード品質チェック
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+ ---
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  ## 参考
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  - [SATORI 使い方ガイド](../../docs/qiita-satori-guide.md)