Results for “tool-use”

Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database.

Access ATXP paid API tools for web search, AI image generation, music creation, video generation, and X/Twitter search. Use when users need real-time web search, AI-generated media (images, music, video), or X/Twitter search. Requires authentication via `npx atxp login`.

Build, validate, and troubleshoot deep links for Codex, Cursor, VS Code, Visual Studio, and similar tools. Use when users ask for clickable links (especially in Slack) that open threads, files, folders, or app settings.

A CLI tool for making authenticated requests to the X (Twitter) API. Use this skill when you need to post tweets, reply, quote, search, read posts, manage followers, send DMs, upload media, or interact with any X API v2 endpoint.

Primary Python tool for 40+ bioinformatics services. Preferred for multi-database workflows: UniProt, KEGG, ChEMBL, PubChem, Reactome, QuickGO. Unified API for queries, ID mapping, pathway analysis. For direct REST control, use individual database skills (uniprot-database, kegg-database).

This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data, or integration with scanpy/scverse tools.

This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data, or integration with scanpy/scverse tools.

This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics analysis, managing experimental measurements with metadata, or handling large-scale biological datasets. Use when tasks involve AnnData objects, h5ad files, single-cell RNA-seq data, or integration with scanpy/scverse tools.

Async data-fetching patterns — Fetch vs Axios, service-layer organisation, AbortController cancellation, and integration with Redux Toolkit's createAsyncThunk for pending/fulfilled/rejected state transitions. Use when writing or reviewing HTTP call sites, standardising loading/error handling, or wiring request cancellation in effects.

Toolkit for creating animated GIFs optimized for Slack, with validators for size constraints and composable animation primitives. This skill applies when users request animated GIFs or emoji animations for Slack from descriptions like "make me a GIF for Slack of X doing Y".

Search models, datasets, Spaces, and papers on the Hugging Face Hub, retrieve repository details and documentation, run compute jobs, and use Gradio Spaces as AI tools via the Hugging Face MCP server.

Use a live Jupyter kernel for stateful, iterative Python execution via hamelnb. Load this skill when the task involves exploration, iteration, or inspecting intermediate results — data science, ML experimentation, API exploration, or building up complex code step-by-step. Uses terminal to run CLI commands against a live Jupyter kernel. No new tools required.

Captures learnings, errors, and corrections to enable continuous improvement. Use when: (1) A command or operation fails unexpectedly, (2) User corrects Claude ('No, that's wrong...', 'Actually...'), (3) User requests a capability that doesn't exist, (4) An external API or tool fails, (5) Claude realizes its knowledge is outdated or incorrect, (6) A better approach is discovered for a recurring task. Also review learnings before major tasks.

Greenfield development path for products, tools, and systems that do not yet exist. G Stack validates the idea before anything is planned or built. Use when starting from zero: no existing codebase, no existing schema, no existing API that this extends. AUTO-FIRE immediately when the user says any of: - "new development", "/new-development [description]" - "I have an idea for [X]", "I want to build [X] from scratch" - "new product", "new tool", "new platform", "new application" - "build [X] — it doesn't exist yet", "start a new project" Do NOT use when an existing codebase already exists for the work — use /full-development for large brownfield work. If unsure: ask "Does any part of this already exist in code?" If yes → /full-development. This is the most token-intensive command. Use it when the investment is justified by the scope of what is being built.

GitHub operations via `gh` CLI: issues, PRs, CI runs, code review, API queries. Use when: (1) checking PR status or CI, (2) creating/commenting on issues, (3) listing/filtering PRs or issues, (4) viewing run logs. NOT for: complex web UI interactions requiring manual browser flows (use browser tooling when available), bulk operations across many repos (script with gh api), or when gh auth is not configured.

Arti — pure-Rust implementation of the Tor anonymity network, by Tor Project. Embeddable Tor client (no system Tor daemon needed), provides SOCKS proxy and programmatic API for connecting to .onion services or routing clearnet traffic through Tor. Used by privacy-respecting wallets (BHODL-style), messenger apps, and any Rust app needing anonymity. Ships as library (arti-client crate) or standalone CLI. USE WHEN: user mentions "arti", "Tor in Rust", "embedded Tor", "arti-client", "Tor circuit Rust", "onion service Rust", "TorClient", "BridgeConfig", "PreferredRuntime" DO NOT USE FOR: Bitcoin Core + Tor configuration - use `bitcoin/privacy/tor` DO NOT USE FOR: Browsing via Tor Browser - end-user tool, not dev DO NOT USE FOR: TLS configuration - use `network/rustls`

Expert-level Windows batch file (.bat/.cmd) skill for writing, debugging, and maintaining CMD scripts. Use when asked to "create a batch file", "write a .bat script", "automate a Windows task", "CMD scripting", "batch automation", "scheduled task script", "Windows shell script", or when working with .bat/.cmd files in the workspace. Covers cmd.exe syntax, environment variables, control flow, string processing, error handling, and integration with system tools.

Design decisions for when and what sounds to use in web apps, mobile apps, and desktop native apps — plus how to create them with AI. Covers UI sound vocabulary (confirms, alerts, transitions, errors), platform conventions (iOS, macOS, Material), creating sounds with AI tools (ElevenLabs, AudioCraft, Stable Audio), Web Audio API for procedural sounds, haptic-audio pairing, and the psychology of satisfying vs. annoying UI sounds. Activate on 'app sounds', 'UI sounds', 'notification sound', 'sound design app', 'earcons', 'sonic branding', 'interaction sounds', 'feedback sounds', 'app audio', 'satisfying sounds'. NOT for professional audio engineering (use sound-engineer), Windows 3.1 retro sounds specifically (use win31-audio-design), music composition (use sound-engineer).

Port MATLAB Data Acquisition Toolbox code from the discouraged (legacy) session-based interface (daq.createSession, addAnalogInputChannel, startBackground, DataAvailable listeners, queueOutputData, wait) to the recommended DataAcquisition interface (daq("ni"), addinput, start, ScansAvailableFcn, write, preload). Use when migrating legacy DAQ scripts, converting session-API calls, working with DataAcquisition objects, writing multi-feature DAQ scripts that combine triggers, callbacks, continuous acquisition, or analog output. Also use when a user says their DAQ script "used to work" or "errors on R20XX", since modernizing legacy session-API code is a frequent fix for those failures. Trigger keywords: daq, DAQ, NI, session interface, addtrigger, addclock, ScansAvailableFcn, ScansRequiredFcn, daq.createSession, addAnalogInputChannel, startBackground, queueOutputData, DataAvailable, evt.Data, evt.TimeStamps, wait(d), preload, discouraged, legacy, modernize, R2020a.