Results for “msigdb”

MongoDB - NoSQL document database with flexible schema design, aggregation pipelines, indexing strategies, and Spring Data integration

Gdb reference tool. Use when working with gdb in devtools contexts.

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 protein target, doing lead optimization, polypharmacology analysis, or structure-activity relationship (SAR) studies; for curated bioactivity mining or drug-like compound library screening at scale prefer alterlab-chembl instead. Part of the AlterLab Academic Skills suite.

Entrena modelos de machine learning con Scikit-learn, LightGBM y XGBoost, desde un baseline hasta un modelo productivo con validación robusta y explicabilidad.

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.

Use DuckDB from MATLAB via Database Toolbox (R2026a+) as a non-math operations engine on large tabular files (CSV/Parquet/JSON) and as a zero-config embedded database. Use when connecting to DuckDB, querying CSV, Parquet, and JSON files directly with SQL, reducing or profiling large data before MATLAB analysis, creating portable development databases, or installing DuckDB extensions. Triggers on: DuckDB, duckdb(), large CSV/Parquet/JSON, file too large for readtable, filter/aggregate at source, deduplicate, reduce before analysis, profile large file, persistent file import, analytical engine, SQL on CSV, SQL on Parquet, SQL on JSON, query CSV with SQL, query Parquet with SQL, run SQL on files, SQL queries on files, query files directly, SQL without database, in-process SQL.

Covers MariaDB-specific behavior of the mariadb command-line client, including batch mode output, delimiter handling, safe-updates, charset detection, and TLS defaults, for writing or reviewing shell commands and scripts.

MySQL relational database. Covers queries, indexes, and optimization. Use when working with MySQL databases. USE WHEN: user mentions "mysql", "mariadb", asks about "AUTO_INCREMENT", "ON DUPLICATE KEY UPDATE", "GROUP_CONCAT", "mysql specific syntax" DO NOT USE FOR: PostgreSQL - use `postgresql` instead, MongoDB - use `mongodb` instead, Oracle - use `oracle` instead, SQL Server - use `sqlserver` instead

Generate a complete, production-ready Model Context Protocol server project in Swift using the official MCP Swift SDK.

Generates kernel-DT overlay fragments to enable 25G/10G/1G MGBE QSFP interfaces on Jetson Thor, verifying pinmux and integrating with the BSP customization workflow.

Access the ZINC database of 230M+ commercially available (purchasable) compounds, searching by ZINC ID or SMILES, running similarity searches, and downloading 3D-ready structures. Use when assembling a compound library for virtual screening, finding purchasable analogs, or obtaining docking-ready 3D structures for drug discovery. Part of the AlterLab Academic Skills suite.

Esta habilidade deve ser usada ao trabalhar com LaminDB, um framework de dados de código aberto para biologia que torna dados consultáveis, rastreáveis, reproduzíveis e FAIR. Use ao gerenciar datasets biológicos (scRNA-seq, espacial, citometria de fluxo, etc.), rastrear workflows computacionais, curar e validar dados com ontologias biológicas, construir data lakehouses, ou garantir linhagem de dados e reprodutibilidade em pesquisa biológica. Aborda gerenciamento de dados, anotação, ontologias (genes, tipos de célula, doenças, tecidos), validação de esquema, integrações com orquestradores de workflow (Nextflow, Snakemake) e plataformas MLOps (W&B, MLflow), e estratégias de deployment.

Expert guidance for architecting, developing, and operating SurrealDB 3, covering SurrealQL, multi-model data modeling, vector search, security, deployment, performance tuning, SDK integration, and ecosystem tools.

Ingest, index, search, edit, and generate video and audio assets from files, URLs, RTSP feeds, or desktop capture, with real-time alerts and stream links.

Reference for MariaDB aggregate functions, covering counting, totals, extrema, string and bitwise aggregation, and statistical functions, with guidance on NULL handling and common pitfalls.

Documents MariaDB-specific GRANT behavior, including privilege scope levels, implicit account creation, MariaDB-only privileges, roles, proxy grants, resource limits, and TLS options, to help write accurate GRANT statements.

Explains MariaDB Connector/R2DBC specifics for writing reactive Java code: URL scheme, placeholder binding, lazy execution, consume-once results, transactions, pooling, and error handling.

Streams change data capture from MongoDB into Redpanda or Kafka using Redpanda Connect's mongodb_cdc input, covering Change Streams, snapshots, document modes, and resume-token checkpointing.

Guides developers migrating applications from MySQL to MariaDB, covering authentication, JSON handling, replication, and SQL syntax differences.

GDB debugging assistant for AI agents - analyze core dumps, debug live processes, investigate crashes and deadlocks with source code correlation

Ingests video and audio from files, URLs, live feeds, or desktop capture; indexes and searches moments with timestamps; transcodes, edits timelines, generates media assets, and emits real-time alerts.

Explains MariaDB-specific SET TRANSACTION behavior, including scope rules, isolation levels, and innodb_snapshot_isolation conflict detection, to help write correct transaction statements and retry logic.

Search scientific papers via the BGPT MCP server and retrieve structured experimental data — methods, results, conclusions, quality scores, and 25+ metadata fields per paper.

Import Gerber, ODB++, Allegro .brd, .mcm files for PCB boards and IC packages. Inspect nets, layers, shapes, and stackups. TRIGGER: user asks to import, read, or open a PCB layout file. Gerber files use gerberRead or PCBReader; ODB++, Allegro .brd, .mcm, and native formats use pcbFileRead. Also when inspecting nets, layers, components, or stackups from an imported board. Invoke BEFORE writing import code — the query API (cadnet, cadnetList, componentList) is specialized. SKIP: EM analysis or S-parameter extraction (use matlab-analyze-em), PDN/IR-drop analysis (use matlab-analyze-pcb-pdn), building custom geometry (use matlab-assemble-pcb-layout), material/stackup definition only (use matlab-manage-pcb-material).

Explains MariaDB-specific defaults and traps of the mariadb-dump client for dev workflows, including consistent backups, routines/events flags, diffable dumps, idempotent seeding, and restore via the mariadb client.

Connects AI agents to SurrealDB via built-in MCP (SurrealDB 3.1+) or standalone surrealmcp for database operations.

Video and audio perception, indexing, and editing. Ingest files/URLs/live streams, build visual/spoken indexes, search with timestamps, edit timelines, add overlays/subtitles, generate media, and create real-time alerts.

Manages a MariaDB database schema across its lifecycle using the MariaDB Schema Management plugin via the mariadb-shell MCP server, covering project creation, versioned development, releases, and deployment.

Installs and configures MariaDB Connector/ODBC, covering driver manager registration, DSN setup, connection-string keywords, and TLS options for Linux, macOS, and Windows.

Mass spectrometry analysis. Process mzML/MGF/MSP, spectral similarity (cosine, modified cosine), metadata harmonization, compound ID, for metabolomics and MS data processing.

Identifies and exploits SMB protocol vulnerabilities using Metasploit Framework during authorized penetration tests to demonstrate risks from unpatched Windows systems, misconfigured shares, and weak authentication in enterprise networks.

See, Understand, Act on video and audio. See- ingest from local files, URLs, RTSP/live feeds, or live record desktop; return realtime context and playable stream links. Understand- extract frames, build visual/semantic/temporal indexes, and search moments with timestamps and auto-clips. Act- transcode and normalize (codec, fps, resolution, aspect ratio), perform timeline edits (subtitles, text/image overlays, branding, audio overlays, dubbing, translation), generate media assets (image, audio, video), and create real time alerts for events from live streams or desktop capture.

Expert CMMC 2.0 (Cybersecurity Maturity Model Certification) advisor for US defense contractors and subcontractors in the Defense Industrial Base (DIB). Use this skill whenever a user asks about CMMC 2.0, CMMC Level 1, Level 2, or Level 3, DoD cybersecurity compliance, NIST SP 800-171, CUI (Controlled Unclassified Information) protection, System Security Plan (SSP), Plan of Action & Milestones (POA&M), C3PAO assessments, DIBCAC audits, self-assessment, SPRS score, or any requirement under DFARS 252.204-7012 or 7021. Also trigger for: "CMMC gap analysis", "CMMC readiness", "FCI protection", "CUI scoping", "CMMC practices", "DoD contract cybersecurity", "defense supply chain security", or "prime contractor flow-down requirements".

Provides best practices for using MariaDB's built-in vector support for AI workloads, including SQL syntax for vector columns, indexes, distance functions, and RAG patterns.

Access the RCSB Protein Data Bank (PDB) for EXPERIMENTALLY determined 3D structures (X-ray, cryo-EM, NMR) of proteins and nucleic acids — searching by text, sequence, or structure similarity and downloading coordinates in PDB/mmCIF format with metadata. Use when retrieving a structure by PDB ID, running sequence or structure similarity searches, or obtaining experimental coordinates for structural biology and drug discovery; for AI-PREDICTED structures of proteins lacking experimental data prefer alterlab-alphafold-db, and for protein sequences, annotations, or accession ID mapping prefer alterlab-uniprot instead. Part of the AlterLab Academic Skills suite.