lamm-mit
- 209 skills
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- 20 hours ago last updated
- ▌ Dhdna Profiler · lamm-mitCognitive pattern extraction system that maps unique thinking fingerprints through structured analysis of reasoning, creativity, emotion, and ethics. Identifies decision patterns and thinking topology. Use for author characterization, team composition analysis, and cognitive style assessment.
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- ▌ Scholar Search · lamm-mit bundleSearch Google Scholar via SerpAPI for academic papers on critical minerals with citation counts and metadata
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- ▌ Claimm Datasets · lamm-mit bundleSearch and discover NETL EDX CLAIMM datasets with 200+ US-focused critical minerals datasets
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- ▌ Conservation Map · lamm-mit bundleCompute per-position conservation/entropy for an aligned peptide MSA (aligned sequences).
- ▌ Disease Research · lamm-mit bundleGenerate comprehensive disease research reports using 100+ ToolUniverse tools. The agent creates a detailed markdown report file and progressively updates it with findings from 10 research dimensions, with full source citations. Use when users ask about diseases, syndromes, or need systematic disease analysis.
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- ▌ Lsystem Executor · lamm-mit bundleExecute L-system and shape grammars to produce visual derivations, SVG/PNG renders, and optional STL meshes
- ▌ Monarch Database · lamm-mitQuery the Monarch Initiative knowledge graph for disease-gene-phenotype associations across species. Integrates OMIM, ORPHANET, HPO, ClinVar, and model organism databases. Use for rare disease gene discovery, phenotype-to-gene mapping, cross-species disease modeling, and HPO term lookup.
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- ▌ Substitution Map · lamm-mit bundleMap substitute materials for critical minerals with trade-off analysis and supply risk assessment
- ▌ Uniprot Database · lamm-mit bundleDirect REST API access to UniProt. Protein searches, FASTA retrieval, ID mapping, Swiss-Prot/TrEMBL. For Python workflows with multiple databases, prefer bioservices (unified interface to 40+ services). Use this for direct HTTP/REST work or UniProt-specific control.
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- ▌ Candidate Ranking · lamm-mit bundleRank peptide variants using stability heuristics and hotspot protection; emit top candidates.
- ▌ Commodity Profile · lamm-mit bundleGenerate comprehensive one-page commodity profiles with production, trade, risk, research, policy, and web intelligence data
- ▌ Data Storytelling · lamm-mit bundleTransform scientific findings into compelling research narratives for papers, grants, and presentations
- ▌ Drugbank Database · lamm-mit bundleAccess and analyze comprehensive drug information from the DrugBank database including drug properties, interactions, targets, pathways, chemical structures, and pharmacology data. This skill should be used when working with pharmaceutical data, drug discovery research, pharmacology studies, drug-drug interaction analysis, target identification, chemical similarity searches, ADMET predictions, or any task requiring detailed drug and drug target information from DrugBank.
- ▌ Firecrawl Scraper · lamm-mit bundleWeb scraping of JavaScript-rendered scientific websites using Firecrawl API
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- ▌ Peptide Sequences · lamm-mit bundleGenerate a curated peptide sequence set for a target (e.g., somatostatin analogs) to seed MSA, conservation, and design branches.
- ▌ Peptide Stability · lamm-mit bundleCompute quick peptide stability/solubility heuristics (net charge, GRAVY, cysteines) for candidate sequences.
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- ▌ Browser Automation · lamm-mit bundlePlaywright-based browser automation for scraping JavaScript-rendered scientific databases
- ▌ Geometry Generator · lamm-mit bundleGenerate parametric bioinspired ribbed membrane STL geometry via LLM-guided design. Takes a spec JSON (from StructureAnalyst/PropertyPredictor upstream artifacts), calls the LLM with a structured CAD prompt to produce design parameters, then builds a triangulated STL mesh in Python. Returns artifact JSON with stl_path, mesh stats, and the prompt used.
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- ▌ Jax Modal Analysis · lamm-mit bundle3D tetrahedral FEM modal analysis of a membrane STL. Takes a binary STL (mm units) + material properties JSON, repairs surface mesh, generates tetrahedral volume mesh via TetGen, assembles 3D stiffness/mass matrices with jax-fem, solves the generalised eigenvalue problem, and reports eigenfrequencies + mode shapes. Returns artifact JSON with eigenfrequencies_hz, eigenfrequencies_khz, modes_in_range, target_range_pass, and paths to summary PNG and CSV.
- ▌ Mutation Generator · lamm-mit bundleGenerate conservative vs aggressive peptide mutation variants given a reference sequence and optional protected/hotspot positions.
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- ▌ Export Restrictions · lamm-mit bundleQuery OECD export restriction policies on critical raw materials with corpus-search enrichment
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- ▌ Minerals Web Ingest · lamm-mit bundleIngest and normalize web pages for critical-minerals intelligence, with optional Firecrawl fetching, deduplication manifest, and JSONL export
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- ▌ Imaging Data Commons · lamm-mit bundleQuery and download public cancer imaging data from NCI Imaging Data Commons using idc-index. Use for accessing large-scale radiology (CT, MR, PET) and pathology datasets for AI training or research. No authentication required. Query by metadata, visualize in browser, check licenses.
- ▌ Minerals Gov Monitor · lamm-mit bundleMonitor government and regulator releases relevant to critical minerals and materials via domain-targeted web discovery with policy tagging
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- ▌ Pointcloud Generator · lamm-mit bundleGenerate a colour-coded 3D point cloud (.xyz + .pcd) for bioinspired hierarchical ribbed membrane lattices — Cricket wing harp layer, Cicada tymbal corrugation layer, and multi-scale hierarchical lattice layer. Each structural element is analytically sampled (pure numpy, no LLM, no OpenSCAD) and assigned a distinct RGB colour. Produces ASCII XYZ, PCL v0.7 ASCII PCD, and a 4-panel PNG (isometric, top-XY, side-XZ, side-YZ). Chainable downstream of pointcloud-generator or upstream of fem-analysis.
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- ▌ Investigation Plotter · lamm-mit bundleGenerate investigation-specific figures from the local artifact graph (post-run plotting agent).
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- ▌ Minerals News Monitor · lamm-mit bundleDiscover critical-minerals and materials signals from newspapers, blogs, and industry media using web search, with normalized policy/commodity tagging
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- ▌ Scientific Report PDF · lamm-mit bundleGenerate a structured scientific PDF report from a JSON description. Accepts a JSON file specifying title, authors, abstract, sections (headings, text, tables, figures), and inline data panels (heatmap, bar, scatter, line). Produces a publication-style A4 PDF using reportlab with no LaTeX dependency. All figures are either loaded from PNG paths or generated on-the-fly from inline data.
- ▌ Structure Enumeration · lamm-mit bundleGenerate candidate crystal structures by element substitution in prototype structures
- ▌ Supply Chain Analysis · lamm-mit bundleCompute supply chain risk metrics for critical minerals — HHI concentration, net import reliance, top-3 share, and trend analysis
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- ▌ Literature Meta Search · lamm-mit bundleUnified search across OSTI, Google Scholar, ArXiv, and corpus-search with deduplication and reciprocal rank fusion
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- ▌ Structure Contact Analysis · lamm-mit bundleIdentify peptide–protein contact hotspots from a PDB structure (local file or fetched from RCSB) and emit binding hotspot positions.