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Engineering

99,663 rows, by stacks then stars

  • Reactome pathway analysis starter

    ma-compbio-lab/SkillFoundry/skills/systems-biology/reactome-pathway-analysis-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Reactome pathway hierarchy walk starter

    ma-compbio-lab/SkillFoundry/skills/systems-biology/reactome-pathway-hierarchy-walk-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Regulatory network inference starter

    ma-compbio-lab/SkillFoundry/skills/systems-biology/regulatory-network-inference-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • String interaction partners starter

    ma-compbio-lab/SkillFoundry/skills/systems-biology/string-interaction-partners-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Bulk rna seq qc and normalization starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/bulk-rna-seq-qc-and-normalization-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Cellxgene census atlas query starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/cellxgene-census-atlas-query-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Isoform transcript level analysis starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/isoform-transcript-level-analysis-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Perturb seq starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/perturb-seq-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Pseudobulk analysis starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/pseudobulk-analysis-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Pydeseq2 differential expression starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/pydeseq2-differential-expression-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Rna velocity starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/rna-velocity-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Scanpy cell type annotation starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/scanpy-cell-type-annotation-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Scanpy combat batch correction starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/scanpy-combat-batch-correction-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Scanpy dpt trajectory starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/scanpy-dpt-trajectory-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Scanpy qc starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/scanpy-qc-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Scanpy ranked genes starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/scanpy-ranked-genes-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Spatial transcriptomics starter

    ma-compbio-lab/SkillFoundry/skills/transcriptomics/spatial-transcriptomics-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Dash scientific dashboard starter

    ma-compbio-lab/SkillFoundry/skills/visualization-and-reporting/dash-scientific-dashboard-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Figure recreation from papers starter

    ma-compbio-lab/SkillFoundry/skills/visualization-and-reporting/figure-recreation-from-papers-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Matplotlib publication plot starter

    ma-compbio-lab/SkillFoundry/skills/visualization-and-reporting/matplotlib-publication-plot-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Mkdocs summary catalog starter

    ma-compbio-lab/SkillFoundry/skills/visualization-and-reporting/mkdocs-summary-catalog-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Plotly interactive report starter

    ma-compbio-lab/SkillFoundry/skills/visualization-and-reporting/plotly-interactive-report-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Quarto notebook report starter

    ma-compbio-lab/SkillFoundry/skills/visualization-and-reporting/quarto-notebook-report-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Skill browser mindmap generation starter

    ma-compbio-lab/SkillFoundry/skills/visualization-and-reporting/skill-browser-mindmap-generation-starter Skill

    36★ repo

    A framework for discovering, compiling, and validating reusable skills for scientific agents.

  • Ansi safe border caption embedding

    ychampion/cskill-agents/agents/claude-code/skills/ansi-safe-border-caption-embedding Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Auto memory tool permission fencing

    ychampion/cskill-agents/agents/claude-code/skills/auto-memory-tool-permission-fencing Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Built in agent feature gating

    ychampion/cskill-agents/agents/claude-code/skills/built-in-agent-feature-gating Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Bundled and mcp turn zero skill filter

    ychampion/cskill-agents/agents/claude-code/skills/bundled-and-mcp-turn-zero-skill-filter Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Cache safe stop hook snapshotting

    ychampion/cskill-agents/agents/claude-code/skills/cache-safe-stop-hook-snapshotting Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Canonical worktree path normalization

    ychampion/cskill-agents/agents/claude-code/skills/canonical-worktree-path-normalization Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Classified skill listing debug telemetry

    ychampion/cskill-agents/agents/claude-code/skills/classified-skill-listing-debug-telemetry Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Conversation engine persistent session state

    ychampion/cskill-agents/agents/claude-code/skills/conversation-engine-persistent-session-state Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Dangerous config file protection

    ychampion/cskill-agents/agents/claude-code/skills/dangerous-config-file-protection Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Fast worktree reuse with head pointer checks

    ychampion/cskill-agents/agents/claude-code/skills/fast-worktree-reuse-with-head-pointer-checks Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Forked auto memory extraction

    ychampion/cskill-agents/agents/claude-code/skills/forked-auto-memory-extraction Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Hook context attachment injection

    ychampion/cskill-agents/agents/claude-code/skills/hook-context-attachment-injection Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Layered command cache invalidation

    ychampion/cskill-agents/agents/claude-code/skills/layered-command-cache-invalidation Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Local and mcp skill name deduplication

    ychampion/cskill-agents/agents/claude-code/skills/local-and-mcp-skill-name-deduplication Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Main agent vs background memory extraction exclusion

    ychampion/cskill-agents/agents/claude-code/skills/main-agent-vs-background-memory-extraction-exclusion Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Main thread empty string agent key normalization

    ychampion/cskill-agents/agents/claude-code/skills/main-thread-empty-string-agent-key-normalization Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Mark after filter memory deduplication

    ychampion/cskill-agents/agents/claude-code/skills/mark-after-filter-memory-deduplication Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Materialization aware refresh escalation

    ychampion/cskill-agents/agents/claude-code/skills/materialization-aware-refresh-escalation Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Mcp skill vs prompt discovery filtering

    ychampion/cskill-agents/agents/claude-code/skills/mcp-skill-vs-prompt-discovery-filtering Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Media block compaction prep

    ychampion/cskill-agents/agents/claude-code/skills/media-block-compaction-prep Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Memory directory exists guidance

    ychampion/cskill-agents/agents/claude-code/skills/memory-directory-exists-guidance Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Memory entrypoint with index discipline

    ychampion/cskill-agents/agents/claude-code/skills/memory-entrypoint-with-index-discipline Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Nested memory trigger consume and clear

    ychampion/cskill-agents/agents/claude-code/skills/nested-memory-trigger-consume-and-clear Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Per agent skill listing dedupe

    ychampion/cskill-agents/agents/claude-code/skills/per-agent-skill-listing-dedupe Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Plugin only agent surface gating

    ychampion/cskill-agents/agents/claude-code/skills/plugin-only-agent-surface-gating Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Prevent continuation stop hook contract

    ychampion/cskill-agents/agents/claude-code/skills/prevent-continuation-stop-hook-contract Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Prevent continuation stop hook messaging

    ychampion/cskill-agents/agents/claude-code/skills/prevent-continuation-stop-hook-messaging Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Privacy redacted repl bridge system init

    ychampion/cskill-agents/agents/claude-code/skills/privacy-redacted-repl-bridge-system-init Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Progressive compaction prompt

    ychampion/cskill-agents/agents/claude-code/skills/progressive-compaction-prompt Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Prompt context handoff for agent runtime

    ychampion/cskill-agents/agents/claude-code/skills/prompt-context-handoff-for-agent-runtime Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Relevant memory selection by header

    ychampion/cskill-agents/agents/claude-code/skills/relevant-memory-selection-by-header Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Reserved summary output budget

    ychampion/cskill-agents/agents/claude-code/skills/reserved-summary-output-budget Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Role aware context slimming

    ychampion/cskill-agents/agents/claude-code/skills/role-aware-context-slimming Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Safe worktree slug validation

    ychampion/cskill-agents/agents/claude-code/skills/safe-worktree-slug-validation Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Scrollback freeze optimization

    ychampion/cskill-agents/agents/claude-code/skills/scrollback-freeze-optimization Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!

  • Session memory first compaction

    ychampion/cskill-agents/agents/claude-code/skills/session-memory-first-compaction Skill

    36★ repo

    Agent skills for coding CLIs, multi-agent runtimes, context engines, MCP extensions, and terminal tooling. Instead of using claude code's source code, give your agent skills to create your own!