academic
156
literature-meta-search
Unified search across OSTI, Google Scholar, ArXiv, and corpus-search with deduplication and reciprocal rank fusion
lamm-mit
research
sorting
stars
current ordering strategy
query
all entries
refine the visible subset
academic
156
minerals-news-monitor
Discover critical-minerals and materials signals from newspapers, blogs, and industry media using web search, with normalized policy/commodity tagging
lamm-mit
research
academic
156
literature-deep-research
ToolUniverse workflow — Literature Deep Research
lamm-mit
research
academic
156
openalex-database
Query and analyze scholarly literature using the OpenAlex database. This skill should be used when searching for academic papers, analyzing research trends, finding works by authors or institutions, tracking citations, discovering open access publications, or conducting bibliometric analysis across 240M+ scholarly works. Use for literature searches, research output analysis, citation analysis, and academic database queries.
lamm-mit
research
astronomy-physics
156
geopandas
Python library for working with geospatial vector data including shapefiles, GeoJSON, and GeoPackage files. Use when working with geographic data for spatial analysis, geometric operations, coordinate transformations, spatial joins, overlay operations, choropleth mapping, or any task involving reading/writing/analyzing vector geographic data. Supports PostGIS databases, interactive maps, and integration with matplotlib/folium/cartopy. Use for tasks like buffer analysis, spatial joins between datasets, dissolving boundaries, clipping data, calculating areas/distances, reprojecting coordinate systems, creating maps, or converting between spatial file formats.
lamm-mit
research
astronomy-physics
156
geomaster
Comprehensive geospatial science skill covering 70+ topics in remote sensing, GIS, spatial analysis, and machine learning for Earth observation. Processes satellite imagery (Sentinel, Landsat, MODIS), vector/raster data, point clouds. Supports 8 programming languages with 500+ code examples.
lamm-mit
research
astronomy-physics
156
spatial-omics-analysis
ToolUniverse workflow — Spatial Omics Analysis
lamm-mit
research
astronomy-physics
156
omero-integration
Microscopy data management platform. Access images via Python, retrieve datasets, analyze pixels, manage ROIs/annotations, batch processing, for high-content screening and microscopy workflows.
lamm-mit
research
astronomy-physics
156
astropy
Comprehensive Python library for astronomy and astrophysics. This skill should be used when working with astronomical data including celestial coordinates, physical units, FITS files, cosmological calculations, time systems, tables, world coordinate systems (WCS), and astronomical data analysis. Use when tasks involve coordinate transformations, unit conversions, FITS file manipulation, cosmological distance calculations, time scale conversions, or astronomical data processing.
lamm-mit
research
bioinformatics
156
immunotherapy-response-prediction
ToolUniverse workflow — Immunotherapy Response Prediction
lamm-mit
research
bioinformatics
156
immune-repertoire-analysis
ToolUniverse workflow — Immune Repertoire Analysis
lamm-mit
research
bioinformatics
156
gwas-database
Query NHGRI-EBI GWAS Catalog for SNP-trait associations. Search variants by rs ID, disease/trait, gene, retrieve p-values and summary statistics, for genetic epidemiology and polygenic risk scores.
lamm-mit
research
bioinformatics
156
gtars
High-performance toolkit for genomic interval analysis in Rust with Python bindings. Use when working with genomic regions, BED files, coverage tracks, overlap detection, tokenization for ML models, or fragment analysis in computational genomics and machine learning applications.
lamm-mit
research
bioinformatics
156
gwas-snp-interpretation
ToolUniverse workflow — Gwas Snp Interpretation
lamm-mit
research
bioinformatics
156
gget
Fast CLI/Python queries to 20+ bioinformatics databases. Use for quick lookups: gene info, BLAST searches, AlphaFold structures, enrichment analysis. Best for interactive exploration, simple queries. For batch processing or advanced BLAST use biopython; for multi-database Python workflows use bioservices.
lamm-mit
research
bioinformatics
156
geometry-generator
Generate 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.
lamm-mit
research
bioinformatics
156
geo-database
Access NCBI GEO for gene expression/genomics data. Search/download microarray and RNA-seq datasets (GSE, GSM, GPL), retrieve SOFT/Matrix files, for transcriptomics and expression analysis.
lamm-mit
research
bioinformatics
156
geniml
This skill should be used when working with genomic interval data (BED files) for machine learning tasks. Use for training region embeddings (Region2Vec, BEDspace), single-cell ATAC-seq analysis (scEmbed), building consensus peaks (universes), or any ML-based analysis of genomic regions. Applies to BED file collections, scATAC-seq data, chromatin accessibility datasets, and region-based genomic feature learning.
lamm-mit
research
bioinformatics
156
ensembl-database
Query Ensembl genome database REST API for 250+ species. Gene lookups, sequence retrieval, variant analysis, comparative genomics, orthologs, VEP predictions, for genomic research.
lamm-mit
research
bioinformatics
156
fem-analysis
Modal analysis of a membrane STL using Kirchhoff plate FEM (scipy eigensolver). Takes a binary STL + material properties JSON, constructs a 2D rectangular FEM mesh, assembles stiffness and mass matrices, extracts the first N eigenfrequencies, and reports whether any mode falls in a target frequency range. Returns artifact JSON with eigenfrequencies_hz, mode_shapes_png, and target_range_pass.
lamm-mit
research