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Open-source research agent: one command runs literature reviews, deep research, paper reviews, paper-code consistency checks and replication plans, searching arXiv, PubMed and more with sources recorded. Good for grad students writing reviews. Run feynman setup to sign in to a model provider.

Linter and formatter for 20+ SQL dialects that auto-fixes most issues and handles Jinja templating and dbt projects (dbt needs a plugin), suited to warehouse code review and CI.

Official AWS MCP for managing FHIR health data in AWS HealthLake: CRUD, advanced search, full patient records, and import and export, with a read-only mode to prevent changes. Needs an AWS account, a paid HealthLake data store and local AWS credentials; clinical conclusions need professional review.

Distributed data integration tool and Apache top-level project with 160+ connectors for batch, real-time and CDC sync. Define jobs in config files and run them on the built-in Zeta engine or on Flink or Spark. Requires Java.

NVIDIA's open-source LLM vulnerability scanner that probes for prompt injection, jailbreaks, data leakage, hallucination and harmful content, supporting OpenAI, Hugging Face, Bedrock and most REST-accessible models. Scanning cloud models needs their API keys.

High-accuracy retrieval-augmented Q&A over paper PDFs, text and Office documents, filling in citation metadata, checking retractions and attaching traceable sources to answers. Provides the pqa CLI and a Python library. Needs an LLM API key by default; local models can be configured.

Terminal tool for exploring and wrangling tabular data: opens dozens of formats including CSV, JSON, Excel and SQLite for filtering, sorting, pivots and frequency counts. --batch mode replays actions headlessly or converts file formats.

Say build a harness for this project and it designs a domain-specific agent team, generating subagent definitions, companion skills and orchestration, validates them and keeps evolving them from feedback. Supports workflow orchestration, persistent agent teams and subagent delegation.

Publication-quality matplotlib plotting skill from a Yale PhD student: bar charts, trends, heatmaps and multi-panel figures with consistent fonts, colors and export settings, plus real plotting scripts from papers published in venues like Nature Machine Intelligence. Needs Python.

Manage database schemas as code: declare the desired schema in SQL, HCL or your ORM and Atlas plans, lints and applies migrations, and can export existing databases as HCL, SQL or Mermaid ER diagrams. Supports PostgreSQL, MySQL and a dozen other databases.

Converts the output of 100+ commands such as dig, ps, ls and ifconfig, plus common file formats, into JSON so agents can parse it reliably with jq or scripts. Also usable as a Python library.

Offline speech toolkit for Apple Silicon Macs: CLI text-to-speech (including Chinese and voice cloning) and speech-to-text, for voicing lessons and explainer videos or transcribing lectures and interviews, with data staying local. Needs an M-series Mac and Python 3.10+; MP3 export needs ffmpeg.

Query, modify and convert JSON, YAML, TOML, XML, CSV, HCL, INI and more with one selector syntax, editing config files in place or converting between formats, handy for agents handling structured data in scripts. A single dependency-free binary that works much like jq or yq.

Query cloud resources and SaaS APIs live with SQL: plugins map AWS, Azure, GCP, GitHub, Kubernetes and other services to tables you can select from directly, no ETL needed. A single binary with Postgres built in.

Turns Peng Sida's public research-writing notes into a skill: revises abstracts, introductions, methods and experiments of ML/CV/NLP papers from a reviewer's view, checks that each claim has experimental evidence, and runs a pre-submission self-check. Pure methodology, no API key.

Diffusion model inference in pure C/C++: one sd-cli command runs SD, FLUX, Qwen Image, Wan and more locally to create or edit images and short videos, with Metal acceleration on Mac. No cloud needed; bring your own model weights and use a release binary or build from source.

Scrapes web pages into Markdown or structured data, with full-site crawling, sitemaps, web search and interaction with dynamic pages. Maintained by Firecrawl; the cloud needs an API key (self-hosting is possible), and the keyless hosted endpoint only offers scrape, search and parse.

OpenAI's official Codex plugin that uses the Gmail connector to search mail, read threads, draft replies and tidy your inbox. The plugin bundles no extra skills; authorize your Google account in Codex.

OpenAI's official set of 18 web data visualization skills: chart selection and critique, D3, Canvas, Three.js, maps, statistical uncertainty, live dashboards, Gantt charts, UML and scrollytelling. Ships with a Codex plugin; installed alone, the plugin-level references are missing.

OpenAI's official Codex plugin with 18 skills to choose, design, build, test and export web charts, maps, dashboards, Gantt charts and UML, using D3, Vega-Lite and Three.js with attention to accessibility and responsiveness. Codex only.

OpenAI's official Codex plugin that guides sequencing analysis from BCL/FASTQ: QC, RNA-seq differential expression, single-cell, variant calling and metagenomics, favoring nf-core and other public pipelines with reproducible run logs. Checks for local tools first. Research use only.

Creates, edits and validates reproducible Python and SQL Jupyter notebooks: organizes cells as reports or tutorials, checks conclusions against actual output and reruns top to bottom before handoff. Maintained by OpenAI in the Data Analytics plugin of openai/plugins.

OpenAI's official life-science skills: 49 skills query public databases such as UniProt, ClinVar, gnomAD and AlphaFold through Python scripts, with a router skill that breaks down questions, normalizes entities and compiles sourced evidence. Written mainly for Codex.

OpenAI's official Codex plugin with about 50 skills that route questions to genetics, omics, pathway, protein structure, chemistry and clinical evidence sources, can split the work across parallel subagents, and synthesize sourced conclusions.