LLM Mart Basic
@llm-mart · Joined Jun 2026
Queries the Precision Medicine Knowledge Graph (PrimeKG) for multiscale biomedical relationships across genes, drugs, diseases, phenotypes, pathways, and biological processes. Use when exploring drug-disease or gene-disease links, building disease-centric knowledge subgraphs, or
Loads Therapeutics Data Commons (TDC, PyTDC) AI-ready drug-discovery datasets and benchmarks — ADME, toxicity, drug-target interaction (DTI), scaffold splits, and molecular oracles for therapeutic ML and pharmacological prediction. Use when fetching a standardized benchmark datas
Provides the RDKit cheminformatics toolkit for low-level, fine-grained molecular primitives — SMILES/SDF parsing, descriptors (MW, LogP, TPSA), fingerprints, substructure/SMARTS search, 2D/3D coordinate generation, similarity, and reaction handling. Use when custom sanitization,
Drives the Rowan cloud quantum-chemistry platform via its Python API for computational chemistry — pKa prediction, geometry optimization, conformer searching, molecular property calculations, protein-ligand docking (AutoDock Vina), and AI protein cofolding (Chai-1, Boltz-1/2), wi
Builds PyTorch-native graph neural networks with TorchDrug for molecules and proteins, exposing custom GNN architectures, task/dataset abstractions, molecular generation, retrosynthesis planning, and knowledge-graph reasoning. Use when a project specifically needs TorchDrug's dat
Generates professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings — biomarker-stratified patient cohort analyses with outcomes and evidence-based treatment recommendation reports with decision algorithms, supporting GRADE evidence
Prepares ISO 13485 certification documentation for medical device Quality Management Systems (QMS) — gap analysis of existing documentation, Quality Manuals, required procedures and work instructions, and Medical Device Files. Use for ISO 13485 QMS documentation, conducting a doc
Processes and analyzes physiological biosignals with the NeuroKit2 Python toolkit — ECG, EEG, EDA, RSP, PPG, EMG, and EOG signals. Use when processing cardiovascular signals, brain activity, electrodermal responses, respiratory patterns, muscle activity, or eye movements, or when
Reads, writes, and manipulates DICOM (Digital Imaging and Communications in Medicine) medical imaging files with the pydicom Python library. Use when reading/writing/modifying DICOM data, extracting pixel data from CT, MRI, X-ray, or ultrasound images, anonymizing DICOM files, wo
Develops, tests, and validates clinical machine learning models with the PyHealth 2.x healthcare AI toolkit. Use when working with electronic health records (EHR), clinical prediction tasks (mortality, readmission, length of stay, drug recommendation), medical coding systems (ICD
Generates concise (3-4 page), focused medical treatment plans in LaTeX/PDF format across all clinical specialties — general medical treatment, rehabilitation therapy, mental health care, chronic disease management, perioperative care, and pain management — using SMART goal framew
Verifies that every bibliography entry actually exists by cross-checking Crossref, OpenAlex, Semantic Scholar, and arXiv (no API key required) plus doi.org DOI registration, fuzzy-matching title and authors (difflib ratio >= 0.70), flagging retractions recorded by Crossref (inclu
Runs a 13-agent deep research pipeline for rigorous academic work on any topic across 7 modes (full research, quick brief, paper review, lit-review, fact-check, Socratic guided research dialogue, and systematic review with optional meta-analysis), covering research-question formu
Audits and repairs Markdown link health across a skills repo via a four-tier pipeline (config hardening, intra-repo file-ref fixes, external URL substitutions, residual exclusions) and enforces a Tier 3 substitution guardrail that prevents regressions of previously-passing links;
Drafts and revises academic papers through a 12-agent pipeline with hardened LaTeX output (apa7 class, PDF compiled from LaTeX), supporting IMRaD, literature review, theoretical, case study, policy brief, and conference paper structures, APA 7.0 (default), Chicago, MLA, IEEE, and
Orchestrates the full academic research pipeline (research, write, integrity check, review, revise, re-review, re-revise, final integrity check, finalize), coordinating alterlab-deep-research, alterlab-paper-writer, and alterlab-paper-reviewer into a seamless 10-stage workflow wi
The AlterLab front door and multi-agent launcher — routes a task to the right AlterLab skill(s) when the user invokes the suite without naming one, and for a multi-stage goal (or on the keyword 'alterflow', aliases 'alterresearch' / 'ultralab') it clarifies the goal with a few qu
Designs courses and teaching materials using backward design (Wiggins & McTighe), constructive alignment (Biggs), and Bloom's taxonomy alignment, generating rubrics, formative and summative assessments, syllabi, lesson plans, inclusive-pedagogy guidance, and online/hybrid course
Supervises theses and dissertations end to end — structure guidance from proposal through defense, chapter-by-chapter writing support (introduction, literature review, methodology, results, discussion), supervision strategies, committee management, defense and viva voce preparati
Composes existing AlterLab skills into multi-agent agentic workflows using current Claude Code orchestration primitives — subagents (including nested subagents), dynamic workflow scripts, agent teams, forks, and the Claude Agent SDK: parallel fan-out, sequential pipelines, judge
/refactor
Refactor
{{SKILL_ENTRY:refactor}}
/release
Release
{{SKILL_ENTRY:release}}
/review
Review
Review a diff with the reviewer fleet, funneled to one triaged verdict. Targets the current working diff, a path, or an inbound GitHub PR.
/spike
Spike
Exploratory spike on a throwaway branch — answer a named question with disposable code. Never merges; exits to a findings note or {{CMD:feature}}.
/sprint
Sprint
Autonomous sprint — one interactive spec gate, then plan-to-PR execution with every auto-decision SMARTS-scored and logged. Hard gates remain true stops.
/standup
Standup
Daily repo hygiene — review the day's repo state, then perform the cleanups under per-action confirmation. Fast-forward only, never destructive without a yes.
/status
Status
Show the project's current state at a glance — stage, open tasks, open questions, overrides since the last checkpoint, current branch. Read-only.
/statusline
Statusline
Wire codeArbiter's statusline into ~/.claude/settings.json, or remove it.
/task
Task
The sanctioned task-board mutator — add a queued task, start one (flips to in-progress and stamps the date, minting a dotted ID on pick-up), or mark an in-progress task done. The only blessed write to open-tasks.md.
/threat-model
Threat model
{{SKILL_ENTRY:security-architecture}}
/tribunal
Tribunal
{{SKILL_ENTRY:tribunal}}
/watch
Watch
Watch a PR's CI to completion — diagnose on red, notify and offer the merge on green. Never auto-merges.
/sandbox-cp
Sandbox cp
Copy a file OUT of a running sandbox box to the host — host-initiated egress only (docker cp). The reverse, a host→container bind, is impossible by construction.
/sandbox-destroy
Sandbox destroy
Tear down a sandbox box — remove its container and named volume. --keep-volume leaves the volume; with no id, prune reclaims any leaked ca.sandbox=1-labeled object. Cached images are retained.
/sandbox-exec
Sandbox exec
Run a single command inside a running sandbox box and capture a JSON result — exitCode, separate stdout/stderr, and a truncated flag past the byte cap. The scriptable exec seam.
/sandbox-shell
Sandbox shell
Open an interactive shell inside a running sandbox box at /work/repo. Read-only root, non-root user, no host-FS access — explore the untrusted code interactively, then exit.
/sandbox
Sandbox
Pull an untrusted repo into an ephemeral, host-FS-isolated Docker container — clone into a named volume, build a dep-cached image, run under structural isolation. Network defaults to offline. Requires Docker and nixpacks.
/add-dep
Add dep
Vet a new or changed third-party dependency for license, provenance, and supply-chain risk before any install runs.
/adr-status
Adr status
Inspect ADR health read-only; optionally select one ADR with --adr N.
/adr
Adr
Record user-decided ADRs or inspect their health read-only. Preserve attribution and acceptance evidence.
Make any song you can imagine
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