Results for “academic-search”
11 skills
alterlab-ieu alterlab-uspto
Access USPTO APIs for patent and trademark searches, examination history (PEDS), assignments, citations, office actions, and trademark status (TSDR). Use when searching patents or trademarks, conducting prior art searches, retrieving patent examination or assignment records, or doing intellectual property (IP) analysis. Part of the AlterLab Academic Skills suite.
60 · bundle
alterlab-ieu alterlab-matchms
Computes mass-spectral similarity and identifies compounds for metabolomics with matchms — comparing mass spectra, scoring similarity (cosine, modified cosine), and searching spectral libraries to annotate unknowns. Use when matching MS/MS spectra, identifying metabolites, or library searching; for full LC-MS/MS proteomics pipelines use pyopenms. Part of the AlterLab Academic Skills suite.
60 · bundle
alterlab-ieu alterlab-jaspar
Query JASPAR for transcription factor binding site (TFBS) profiles (PWMs/PFMs), searching by TF name, species, or class, scanning DNA sequences for binding sites, and comparing matrices. Use when doing motif analysis, regulatory genomics, transcription factor binding prediction, or interpreting regulatory/non-coding GWAS variants. Part of the AlterLab Academic Skills suite.
60 · bundle
More results
loopyluci arxiv
Search arXiv papers by keyword, author, category, or ID.
1 · bundle
seaworld008 arxiv
Search arXiv papers by keyword, author, category, or ID.
65
alterlab-ieu alterlab-aeon
Runs time series machine learning with the aeon library — classification, regression, clustering, forecasting, anomaly detection, segmentation, and similarity search via scikit-learn compatible APIs. Use when working with temporal data, sequential patterns, or time-indexed observations (univariate or multivariate) that need specialized algorithms beyond standard ML approaches. Part of the AlterLab Academic Skills suite.
60 · bundle
sakamoto-family-smile search-first
Guides a research-before-coding workflow, searching existing tools, libraries, and patterns before writing custom code, with decision matrices and integration with agent workflows.
0
mhassan0000 search-first
Guides the agent to research existing tools, libraries, and patterns before writing custom code, using parallel searches across package registries, MCP servers, skills, and GitHub, then evaluating and deciding to adopt, extend, or build.
1
alterlab-ieu alterlab-hmdb
Access the Human Metabolome Database (HMDB, 220K+ metabolites), searching by name, HMDB ID, or structure to retrieve chemical properties, biomarker data, NMR/MS reference spectra, and associated pathways. Use when identifying a human metabolite, looking up its biomarker or disease associations, matching NMR/MS spectra, or running metabolomics annotation. Part of the AlterLab Academic Skills suite.
60 · bundle
alterlab-ieu alterlab-gene-db
Query NCBI Gene via the E-utilities and Datasets APIs, searching by gene symbol or Gene ID and retrieving gene information (RefSeqs, GO terms, genomic locations, associated phenotypes) including batch lookups. Use when resolving gene symbols to IDs, annotating gene lists, or pulling functional and positional gene metadata for downstream analysis. Part of the AlterLab Academic Skills suite.
60 · bundle
alterlab-ieu alterlab-chembl
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 target. Use when screening chemical libraries, mining curated bioactivity for a protein, running SAR studies, or sourcing medicinal-chemistry data; for measured protein-ligand binding affinities (Ki/Kd/IC50) prefer alterlab-bindingdb instead. Part of the AlterLab Academic Skills suite.
60 · bundle