File Ops
File manipulation and management
cmux-debug-windows
by manaflow-ai
Manage cmux debug windows and related debug menu wiring for Sidebar Debug, Background Debug, and Menu Bar Extra Debug. Use this when the user asks to open/tune these debug controls, add or adjust Debug menu entries, or capture/copy a combined debug config snapshot.
langchain4j-vector-stores-configuration
by giuseppe-trisciuoglio
Provides configuration patterns for LangChain4J vector stores in RAG applications. Use when building semantic search, integrating vector databases (PostgreSQL/pgvector, Pinecone, MongoDB, Milvus, Neo4j), implementing embedding storage/retrieval, setting up hybrid search, or optimizing vector database performance for production AI applications.
architectural-analysis
by pedronauck
Deep architectural audit focused on finding dead code, duplicated functionality, architectural anti-patterns, type confusion, and code smells. Use when user asks for architectural analysis, find dead code, identify duplication, or assess codebase health.
find-rules
by pedronauck
Discover and understand project rules, coding standards, and architectural guidelines before starting a task. Use when you need to know the constraints, patterns, or compliance requirements for a feature, file, or technology.
Analyzing AgentScope Library
by Microck
This skill provides a way to retrieve information from the AgentScope library for analysis and decision-making.
geo-database
by jaechang-hits
"Query NCBI Gene Expression Omnibus (GEO) for gene expression datasets and sample metadata via GEOparse Python library and E-utilities. Search datasets by keyword/organism/platform, download GSE series matrices, parse GPL platform annotations, extract GSM sample metadata, and load expression matrices into pandas. For single-cell data use cellxgene-census; for programmatic multi-DB access use gget-genomic-databases."
gatk-variant-calling
by jaechang-hits
"GATK Best Practices pipeline for germline SNP and indel variant calling from WGS/WES BAM files. Runs HaplotypeCaller in GVCF mode per sample, consolidates with GenomicsDBImport, joint-genotypes with GenotypeGVCFs, and applies VQSR or hard filters. Requires BWA-MEM2-aligned, markdup, and BQSR-processed BAMs. Use DeepVariant instead for a faster deep-learning alternative; GATK is the ENCODE/NIH standard for research and clinical genomics."
implement-design
by figma
Translates Figma designs into production-ready code with 1:1 visual fidelity. Use when implementing UI from Figma files, when user mentions "implement design", "generate code", "implement component", "build Figma design", provides Figma URLs, or asks to build components matching Figma specs. Requires Figma MCP server connection.
learner
by ReinaMacCredy
Extract hard-won principles from the current session and save as reusable learned skills.
latex-conference-template-organizer
by Galaxy-Dawn
Organize messy conference LaTeX template .zip files into clean Overleaf-ready structure. Use when the user asks to "organize LaTeX template", "clean up .zip template", or "prepare Overleaf submission template".
file-upload-testing
by Ed1s0nZ
文件上传漏洞测试的专业技能和方法论
alloydb-basics
by google
Manages clusters, instances, and backups for AlloyDB for PostgreSQL, and integrates with AlloyDB model context protocol (MCP) tools for automated database operations.
auto-empirical-research-skills
by brycewang-stanford
Route empirical-research requests through the Auto-Empirical Research Skills catalog when this whole repository is installed as one skill in Codex, CodeBuddy, Claude Code, or another IDE. Use to choose and load the right vendored AERS skill for causal inference, econometrics, replication, manuscript writing, citation checking, de-AIGC editing, or full empirical-paper workflows without reading the entire repository at once.
make-skill
by dotnet
'Create new Agent Skills for GitHub Copilot. Use when asked to create, scaffold, or add a skill. Generates SKILL.md with frontmatter, directory structure, and optional resources.'
geniml
by K-Dense-AI
This skill should be used when working with genomic interval data (BED files) for machine learning tasks. Use for training region embeddings (Region2Vec, BEDspace), single-cell ATAC-seq analysis (scEmbed), building consensus peaks (universes), or any ML-based analysis of genomic regions. Applies to BED file collections, scATAC-seq data, chromatin accessibility datasets, and region-based genomic feature learning.
tools-ui
by inference-sh
"Tool lifecycle UI components for React/Next.js from ui.inference.sh. Display tool calls: pending, progress, approval required, results. Capabilities: tool status, progress indicators, approval flows, results display. Use for: showing agent tool calls, human-in-the-loop approvals, tool output. Triggers: tool ui, tool calls, tool status, tool approval, tool results, agent tools, mcp tools ui, function calling ui, tool lifecycle, tool pending"
pest-testing
by coollabsio
Tests applications using the Pest 4 PHP framework. Activates when writing tests, creating unit or feature tests, adding assertions, testing Livewire components, browser testing, debugging test failures, working with datasets or mocking; or when the user mentions test, spec, TDD, expects, assertion, coverage, or needs to verify functionality works.
apple-notes
by NousResearch
Manage Apple Notes via the memo CLI on macOS (create, view, search, edit).
feishu-cli-search
by riba2534
搜索消息和应用。当用户请求搜索飞书消息或应用时使用。重要：需要 User Access Token 才能使用。
xlsx
by iOfficeAI
'Comprehensive spreadsheet creation, editing, and analysis with support for formulas, formatting, data analysis, and visualization. When Claude needs to work with spreadsheets (.xlsx, .xlsm, .csv, .tsv, etc) for: (1) Creating new spreadsheets with formulas and formatting, (2) Reading or analyzing data, (3) Modify existing spreadsheets while preserving formulas, (4) Data analysis and visualization in spreadsheets, or (5) Recalculating formulas'
featurecounts-rna-counting
by jaechang-hits
"Counts aligned RNA-seq reads overlapping gene features in a GTF annotation. Takes sorted BAM files from STAR alignment and a GTF file; outputs a tab-delimited count matrix per gene across all samples. Handles strandedness (0=unstranded, 1=stranded, 2=reverse-stranded), paired-end, and multi-sample batch counting in a single command. Use Salmon instead for alignment-free quantification; use featureCounts when STAR BAMs already exist and a gene-level count matrix is needed."
imaging-data-commons
by jaechang-hits
"Query NCI Imaging Data Commons (IDC) for cancer radiology and pathology imaging datasets hosted on Google Cloud. Search DICOM collections by modality, anatomical site, cancer type, or collection name. Download images via Google Cloud Storage or IDAT tool. 50TB+ of publicly accessible DICOM images. Requires Google Cloud account for large downloads; small queries work without billing. For local DICOM processing use pydicom-medical-imaging; for whole-slide pathology use histolab."
gif-search
by NousResearch
Search and download GIFs from Tenor using curl. No dependencies beyond curl and jq. Useful for finding reaction GIFs, creating visual content, and sending GIFs in chat.
cartography
by alvinunreal
Repository understanding and hierarchical codemap generation