235 件 ・ 関連度順
概要と使いどころ
The dada2 package infers exact amplicon sequence variants (ASVs) from high-throughput amplicon sequencing data, replacing the coarser and less accurate OTU clustering approach. The dada2 pipeline takes as input demultiplexed fastq files, an
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ASURAT is a software for single-cell data analysis. Using ASURAT, one can simultaneously perform unsupervised clustering and biological interpretation in terms of cell type, disease, biological process, and signaling pathway activity. Inputting a single-cell RNA-seq data and knowledge-based databases, such as Cell Ontology, Gene Ontology, KEGG, etc., ASURAT transforms gene expression tables into original multivariate tables, termed sign-by-sample matrices (SSMs).
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syntenet can be used to infer synteny networks from whole-genome protein sequences and analyze them. Anchor pairs are detected with the MCScanX algorithm, which was ported to this package with the Rcpp framework for R and C++ integration. Anchor pairs from synteny analyses are treated as an undirected unweighted graph (i.e., a synteny network), and users can perform: i. network clustering; ii. phylogenomic profiling (by identifying which species contain which clusters) and; iii. microsynteny-bas
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the R package BioNAR, developed to step by step analysis of PPI network. The aim is to quantify and rank each protein’s simultaneous impact into multiple complexes based on network topology and clustering. Package also enables estimating of co-occurrence of diseases across the network and specific clusters pointing towards shared/common mechanisms.
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Expert knowledge for Azure Managed Redis development including troubleshooting, best practices, decision making, architecture & design patterns, security, configuration, integrations & coding patterns, and deployment. Use when using Redis tiers, Entra ID auth, clustering/sharding, persistence/geo-replication, or ARM/Bicep deployments, and other Azure Managed Redis related development tasks. Not for Azure Cache for Redis (use azure-cache-redis).
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Detect and investigate bulk registration abuse on SaaS platforms. Given access to a user database (or exported CSV/JSON), run a multi-dimensional anomaly analysis — email domain clustering, registration tempo, UA fingerprinting, session structure, usage patterns, and credit consumption — to produce a scored abuse report with actionable recommendations. Use when investigating suspicious sign-up spikes, credit fraud, free-tier abuse, or account farming.
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Cyber threat intelligence and OSINT analysis toolkit. Runs structured investigations and delivers analyst-grade intelligence products with sourced, trust-scored findings. Use for OSINT and CTI cases, digital-footprint and exposure review, domain/subdomain/DNS/certificate recon, web-infrastructure pivoting (favicon hashes, tracker IDs, TLS certs, phishing-kit fingerprinting, campaign clustering), username/email/phone enumeration, breach and infostealer-log triage, image forensics, geolocation, crypto-wallet and IBAN/bank-account tracing, darknet search, M365/Azure and SaaS tenant recon, China/Sinophone recon (ICP filings, PRC corporate registries, Baidu/FOFA/Quake/ZoomEye), vulnerability and ransomware lookup, threat modeling, PII redaction, and structured reporting. Commands include /case, /sweep, /query, /webpivot, /username, /phone, /email-deep, /breach-deep, /icp, /cn-corp, /iban, /stealer-log, /exposure, /threat-model, /report, /brief, /redact, /apikeys.
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Guides technology selection and implementation of AI and ML features in .NET 8+ applications using ML.NET, Microsoft.Extensions.AI (MEAI), Microsoft Agent Framework (MAF), GitHub Copilot SDK, ONNX Runtime, and OllamaSharp. Covers the full spectrum from classic ML through modern LLM orchestration to local inference. Use when adding classification, regression, clustering, anomaly detection, recommendation, LLM integration (text generation, summarization, reasoning), RAG pipelines with vector search, agentic workflows with tool calling, Copilot extensions, or custom model inference via ONNX Runtime to a .NET project. DO NOT USE FOR projects targeting .NET Framework (requires .NET 8+), the task is pure data engineering or ETL with no ML/AI component, or the project needs a custom deep learning training loop (use Python with PyTorch/TensorFlow, then export to ONNX for .NET inference).
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AI公众号信息源 — Daily scan of AI WeChat public accounts, finding the hottest articles by read count, auto-clustering into topics, and generating a styled HTML report with cover images, metrics, search, and subscription support. Use when the user wants AI daily reports, 公众号爆款, AI content curation, 每日AI热点, or 公众号日报.
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Market regime identification using volatility clustering, trend detection, and statistical methods for adaptive trading
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Cross-asset correlation analysis including rolling correlation, hierarchical clustering, tail dependence, and regime-dependent correlation
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Comprehensive toolkit for creating, analyzing, and visualizing complex networks and graphs in Python. Use when working with network/graph data structures, analyzing relationships between entities, computing graph algorithms (shortest paths, centrality, clustering), detecting communities, generating synthetic networks, or visualizing network topologies. Applicable to social networks, biological networks, transportation systems, citation networks, and any domain involving pairwise relationships.
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Pythonic wrapper around RDKit with simplified interface and sensible defaults. Preferred for standard drug discovery: SMILES parsing, standardization, descriptors, fingerprints, clustering, 3D conformers, parallel processing. Returns native rdkit.Chem.Mol objects. For advanced control or custom parameters, use rdkit directly.
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scRNA-seq with Scanpy: QC, normalization, HVG selection, PCA, neighborhood graph, UMAP/t-SNE, Leiden clustering, markers, cell annotation, trajectory inference. Standard scRNA-seq exploration.
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Python library for genomic interval ML. Train/apply region2vec embeddings turning BED regions into vectors, index interval datasets for ML, search embedding space with BEDSpace, and evaluate embedding quality. Use for chromatin accessibility clustering, regulatory element classification, and cross-sample region comparison.
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Pythonic RDKit wrapper with sensible defaults for drug discovery. SMILES parsing, standardization, descriptors, fingerprints, similarity, clustering, diversity selection, scaffold analysis, BRICS/RECAP fragmentation, 3D conformers, and visualization. Returns native rdkit.Chem.Mol. Prefer datamol for standard workflows; use RDKit directly for advanced control.
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UMAP dimensionality reduction for visualization, clustering prep, and feature engineering. Fast nonlinear manifold learning preserving local and global structure. Standard UMAP (fit/transform, sklearn-compatible), supervised/semi-supervised, Parametric UMAP (NN encoder/decoder, TensorFlow), DensMAP (density), AlignedUMAP (temporal/batch). 15+ distance metrics, custom Numba metrics, precomputed distances. For linear reduction use PCA; for neighborhood graphs use sklearn NearestNeighbors.
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Classical ML in Python: classification, regression, clustering, dim reduction, evaluation, tuning, preprocessing pipelines. Linear models, tree ensembles, SVMs, K-Means, PCA, t-SNE. Use PyTorch/TF for deep learning; XGBoost/LightGBM for scale.
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Recover and review local human-AI conversations from Claude Code, Codex, opencode, Grok Build, and Cursor. Use when the user wants to revisit, search, extract, summarize, or compare work across Agent session stores, time ranges, projects, or named conversations. Follow the user's requested output; question clustering, problem-space mapping, artifact review, drift analysis, and insights are optional lenses.
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Techniques for expanding seed keywords and clustering by topic and intent. Use when building keyword lists, planning content calendars, or identifying topic clusters for pillar content strategy.
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SEO keyword clustering with topic organization, content hub architecture, internal linking strategies. Use for content strategy, keyword research, pillar page structures, or encountering cluster organization, hub architecture, internal linking errors.
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Think and work like an expert Epidemiologist. Use when a task calls for Epidemiologist judgment. Reasons from person-time, transmission dynamics, and population case definitions through epidemic curves, DAGs, renewal and SEIR models (EpiEstim, deSolve), SaTScan clustering, and STROBE/ORION/GRADE standards while treating confounding, collider stratification from test-positive conditioning, reporting-delay and testing-intensity artifacts, and superspreading overdispersion as first-class failure modes.
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Think and work like an expert Astrostatistician. Use when a task calls for Astrostatistician judgment. Reasons from selection functions, censored flux limits, and look-elsewhere trial factors through Cobaya/emcee/dynesty cosmology, GP-coupled exoplanet inference, Landy–Szalay clustering, photo-z σNMAD calibration, and SBI (sbi/LtU-ILI) while treating Malmquist bias, prior-driven tensions, and detrend-then-fit transit bias as first-class failure modes.
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Detect and remove doublets from flow and mass cytometry data. Covers FSC/SSC gating and computational doublet detection methods. Use when filtering out cell aggregates before clustering or quantitative analysis.
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