LLM Mart Basic

Loads, runs, and fine-tunes pretrained models with Hugging Face Transformers v5 (PyTorch-only) — pipeline() inference for chat-model text generation, text classification, NER, zero-shot, speech recognition, image classification, object detection, and image-text-to-text VLMs; Auto

Nonlinear dimensionality reduction with UMAP — fast manifold learning for 2D/3D visualization, clustering preprocessing (e.g., HDBSCAN), and supervised or parametric UMAP. Use when projecting high-dimensional data to low dimensions for visualization, embedding generation, or as a

Out-of-core tabular analytics with Vaex — memory-mapped HDF5/Arrow/Parquet via vaex.open, lazy virtual columns, delayed single-pass aggregations on billion-row tables, binned histograms/heatmaps, and vaex.ml transformers on one machine. Vaex is in minimal-maintenance mode (vaex-c

Access the AlphaFold DB of 240M+ AI-PREDICTED protein structures (v6, plus precomputed homodimer/heterodimer complexes) — retrieve models by UniProt accession, download PDB/mmCIF files, and analyze prediction confidence metrics (pLDDT, PAE). Use when a UniProt ID needs a computat

Search and retrieve preprints from arXiv via the Atom API by keywords, authors, arXiv IDs, date ranges, or subject categories. Use when finding or fetching papers in physics, mathematics, computer science, quantitative biology, quantitative finance, statistics, electrical enginee

Query BindingDB for measured protein-ligand binding affinities (Ki, Kd, IC50, EC50) via its keyless REST API or the full TSV download, searching by target (UniProt ID), compound (SMILES), or pathogen. Use when looking up experimental binding constants, profiling inhibitors of a p

Search the bioRxiv preprint server and retrieve paper metadata or download PDFs via its API. Use when finding life sciences preprints by keywords, authors, DOI, date ranges, or categories, or when conducting a biology literature review of not-yet-peer-reviewed work. Part of the A

Access the BRENDA enzyme database via its SOAP API to retrieve kinetic parameters (Km, kcat, Ki), reaction equations, organism data, and substrate-specific enzyme information indexed by EC number. Use when looking up enzyme kinetics, turnover numbers, or substrate specificity for

Query cBioPortal via its keyless REST API for cancer genomics across TCGA, GENIE, MSK-IMPACT and hundreds of studies — somatic mutations, copy-number alterations (GISTIC), mRNA/protein expression, structural variants, and patient-level clinical/survival data. Use when asked how o

Query ChEMBL via the chembl_webresource_client Python client for curated bioactive molecules and drug-like compound libraries at scale — search compounds by structure or physicochemical properties, retrieve bioactivity measurements (IC50, Ki, EC50), and find inhibitors of a targe

Query ClinicalTrials.gov via its API v2 to search trials by condition, drug, location, recruitment status, or phase and retrieve trial details by NCT ID. Use when finding interventional or observational studies, checking trial status and eligibility for patient matching, or expor

Access ClinPGx pharmacogenomics data (the successor to PharmGKB) to query gene-drug interactions, CPIC/DPWG dosing guidelines, drug labels, and pharmacogene records. Use when interpreting pharmacogenes (CYP2D6, CYP2C19, TPMT, DPYD, SLCO1B1), looking up genotype-guided drug dosing

Query NCBI ClinVar via the E-utilities API or FTP for the clinical significance (pathogenicity) of human germline genetic variants, searching by gene, variant, condition, or genomic position and interpreting ACMG/AMP classifications and review-status star ratings. Use when assess

Access the COSMIC catalogue of somatic mutations in cancer to query somatic mutations, the Cancer Gene Census, mutational signatures, and gene fusions (authentication required). Use when curating known cancer driver genes, looking up recurrent somatic mutations in a gene, or inte

Use when conducting security assessments — OWASP Top 10 / API / LLM, CWE Top 25, CVSS scoring — auditing PHP/TYPO3, APIs, frontend, Terraform/K8s/Docker IaC, AWS cloud, AI agent configs, or scanning dependencies.

Look up and apply Python builtin and standard-library time and space complexity when analyzing code, reviewing performance, or comparing operations. Includes implementation and version qualifications. Use for complexity analysis, not general Python syntax questions.

Designs and reviews tests for every complexity, behavioral, and performance claim in documentation. Use when adding or changing claims, auditing claim or API coverage, or creating module complexity tests.

Updates this repository's supported Python range when an old version reaches EOL or a new final version is released. Covers package metadata, CI pins, version references, documentation, translations, public API manifests, tests, and lockfile verification.

Run a user-authored playbook from the vault: a multi-step guided procedure. Lists available global and local playbooks, selects one by trigger, and drives its steps in order — spawning per-step sub-agents or running inline, pausing at review gates.

Cut a booping plugin release — verify the version bump against the last published tag, draft public-voiced release notes, merge the release branch into master, tag, and publish the GitHub release. Use when cutting a vX.Y.Z release of this repo.

Every VM came back. The cluster did not. Declarative systems converge on config, and the datapath isn't config.

A surprising share of AI-in-the-terminal failures aren't the AI. They're zsh, and a version of bash from 2006.

A Claude Code plugin turns standalone project configuration into a namespaced, installable extension that teams and communities can update as one unit.

None of the safety came from the model. It came from six boring habits.

Skills package instructions and references. Subagents run work in a separate context and return results. They solve different problems and can be composed deliberately.

Six hours in, one step left, everything green, and the incident that didn't happen

CLAUDE.md carries persistent project context. Skills load reusable procedures when relevant. Separating stable facts from task-specific workflows keeps both easier to maintain.

Twenty minutes recovering secrets that never existed, and the one sentence from a human that ended it

An API request routing a model's tool call through an approval gate to a remote MCP server

31 config keys, two audits, and why the first one was wrong in both directions

The official MCP Registry stores standardized server metadata rather than package code. Publishers verify a namespace, describe installation or remote access, and submit immutable versions.

Everyone looks at the Dockerfile. The file that actually leaked the key was the project file.

Remote MCP authorization uses established OAuth standards, but secure integration still requires issuer validation, least-privilege scopes, protected token handling, and server-side enforcement.

"Copy it over and switch the reference" is two steps, and the outage lives in the one nobody checks

stdio fits local processes and prototypes. Streamable HTTP fits hosted services and shared integrations. The right choice follows where the capability runs and who must reach it.

The most important rule wasn't about what I could change. It was about what I was allowed to display.

Tools perform operations, resources expose readable context, and prompts provide reusable templates. Choosing the correct primitive makes an MCP server easier to understand and govern.

Use MCP Inspector to connect to local or remote servers, inspect capabilities, call tools, read resources, test prompts, and diagnose failures before release.

Build an MCP server in TypeScript with focused tools, validated schemas, local and remote transports, Inspector tests, and production security controls.

An MCP server exposes tools, resources, or prompts through a standard protocol so an AI application can discover and use external capabilities.

Author a numbered, dated, user-attributed Architecture Decision Record under .codearbiter/decisions/.

Assemble the governance record for a range — commits, overrides, ADRs, sprint auto-decisions, open questions, checkpoint findings — into one dated audit packet. Read-only.

Lightweight Q&A about the project — answer from context and return, no routing, no state change.

Periodic multi-reviewer sweep of the whole codebase — surfaces a triaged checkpoint report.

Sanctioned lane for non-behavioral work — docs-only edits, dependency bumps, reverts. Type-scaled gates; no TDD demanded of prose.

Finish an already-merged branch — classify the leftover artifacts, return to a fast-forwarded default checkout, and delete the merged local branch. Every discard confirmed per item; containment proven, never assumed.

Show the codeArbiter command catalog — the public command list and what each routes to.

Run the full commit gate — the only sanctioned path to a git commit.

Stop everything and surface a rule conflict — persona vs. docs vs. code. Present both sides and the conflict-hierarchy level; the user resolves. No silent reconciliation.

Optional manual drift audit — report stale provenance-tracked docs, then per stale doc offer re-scout, re-baseline, or defer. Not the daily loop; commit-gate auto-heal owns routine maintenance.

Brownfield back-fill — scout an existing codebase and populate .codearbiter/, then lock it initialized.

Investigate-then-decide root-cause analysis for a defect whose cause is unknown. No code changes — exits to /ca:fix, /ca:adr, or a no-action close.

Greenfield decomposition interview — a layered interview that populates .codearbiter/ and locks it initialized.

Verify the active host install, package, command ownership, enforcement, and harmless live-fire probe. Read-only.

Start a feature: brainstorm a spec, get it approved, then drive it test-first through the pipeline. The one entry to implementation.

Fix a confirmed bug: a failing regression test first, then a minimal fix, then the rest of the tdd gates.

Opt this repo into codeArbiter — scaffold the root-level .codearbiter/ state store.

Read-only 3-metric governance glance — override rate, small-lane rate, sprint low-confidence ratio — each with a trend arrow vs. the prior 20-commit window.

Author a new codeArbiter skill: prove the gap is real, get the spec approved, then write it.

Sanctioned, logged bypass of a gate or hard rule — one audit line, then proceed.

Implementation of Podlite markup language

Open-source AI video workbench. Bring any model or your local ComfyUI, and let Claude Code / Codex / Cursor direct it over MCP — storyboard, references, generat…

《深入理解 AI Agent：设计原理与工程实践》（李博杰 著）开源主仓库：全书正文、编译版 PDF 与按章配套代码

Distilly — Distill how they think into reusable Skills for any Agent or Bot. Formerly Colleague Skill（原同事 Skill）.

本地优先的类飞书 Markdown 编辑器,内置可审改的 AI 助手 | Local-first WYSIWYG Markdown editor with a reviewable AI agent

A lightweight all-in-one terminal with 20+ protocols — SSH, RDP, SFTP, databases, Kubernetes and more. With a built-in autonomous AI Agent that plans and runs m…

一款专注于桌宠方向的AIAgent。特点是一键安装、功能齐全、极低开销、完全暴露上下文、全功能插件化、AI自主插件开发、永久唯一会话、类游戏引擎交互策略。具有极高的扩展性和拟人程度上限，非常适合想长期培养和自定义需求高的用户。

Control Gmail, Google Calendar, Docs, Sheets, Slides, Chat, Forms, Tasks, Search & Drive with AI - Comprehensive Google Workspace MCP Server & CLI Tool

一个先接住情绪、再分析关系并给出可执行策略的 Codex 恋爱军师，内置心理、法律、社会、人文、哲学、婚姻家庭与性学知识库，支持多元关系。

AI-powered SRE platform — read-only infrastructure diagnostics with deep investigation, security governance, and team collaboration

An open-source AI desktop companion inspired by Cyrene, combining immersive Chat, personalized long-term memory, and an agentic Work mode.

A local-first AI agent with persistent memory, emotional intelligence, and a peer-to-peer skills economy.

The open-source, multi-agent alternative to Claude Tag. @ any agent, wherever work happens, your agents work alongside your team and each other, learning as the…

Simple LLM service identification - translate IP:Port to Ollama, vLLM, LiteLLM, or 60+ other AI services in seconds

🔥 Official Firecrawl MCP Server - Adds powerful web scraping and search to Cursor, Claude and any other LLM clients.

Claude in Chrome, reverse-engineered and open-source. No domain blocklist. Any Chromium browser. Same 18 MCP tools, same performance.

Agent-native flight & hotel search and booking — MCP server, CLI, and Python/JS SDKs. Hundreds of airlines plus the major booking sites, with per-flight reliabi…

Open-source desktop AI agent for tools, files, knowledge, workflows, and real deliverables.

Open-source AI job search: scan job portals, evaluate listings into a structured A-H report with a global 1-5 score, tailor your CV, track applications — runs l…

Privacy-first Codex skill for discovering, validating, completing, and tracking job applications