“tool calling”的搜索结果

Statically analyze a Simulink model for Rapid Accelerator (raccel) mode incompatibilities. Identifies unsupported blocks (Interpreted MATLAB Function, Level-2 S-Functions without TLC), configuration issues, and data type restrictions that prevent code generation. Classifies each issue as BLOCKER (build error) or WARNING (build warning). Use BEFORE calling sim() in rapid-accelerator mode, when buildRapidAcceleratorTarget fails, or when the user asks "why won't my model run in raccel?" TRIGGER: any request explicitly involving rapid accelerator mode, raccel, raccel build errors, or buildRapidAcceleratorTarget failures.

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Set up signal capture for a Simulink Real-Time application using `slrealtime.Instrument`. Use when choosing which signals a real-time application captures and where the data goes — test-pointing or canvas-badging a signal before build (`TestPoint`, `DataLogging`), constructing an Instrument from an `.mldatx`, calling `addSignal`, `addInstrumentedSignals`, `addFileLogSignals`, `validate`, `connectCallback`, `copy`, or `generateScript`, attaching an instrument to `tg.Instruments` via `addForFileLog`, `addForSDI`, or `addForMATLAB`, setting up live-streaming signals, dynamic file-log workflows, or persisting an instrument as M-code. Selects and routes signals only — not for configuring, building, running, or connecting applications onto targets.

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Use when integrating legacy code, custom code, or C/C++ code into Simulink via C Function blocks. Configure Simulink C Function blocks programmatically using the SymbolSpec API. TRIGGER when the user: - Asks about calling or wrapping C/C++ code or libraries in Simulink - Wants to create, configure, or use a C Function block - Mentions integrating custom code, legacy code, or external C/C++ into a model - Asks to integrate a C++ class into a Simulink model or test bench - Mentions inputs/outputs/parameters for a C++ algorithm block

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Detects TAD boundaries from balanced Hi-C contact matrices via the diamond-window insulation score (cooltools insulation) and HiCExplorer hicFindTADs, returning a continuous log2 insulation track, valley-prominence boundary_strength, and Li/Otsu-thresholded is_boundary flags across a list of window sizes. Covers the multi-scale window sweep (sub-TAD to compartment-domain), why the boundary is reproducible but the domain partition is not, cross-condition comparison via differential SCORE not differential partition, and the insulation-vs-compartment orthogonality. Use when calling TADs or domain boundaries, computing insulation scores, choosing a window size, ranking boundary strength, comparing boundaries across conditions, or annotating CTCF-backed boundaries; route domain rendering to hic-visualization and boundary-feature overlap to genome-intervals.

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Rank and prioritize neoantigen/epitope candidates by likely T-cell response using NeoFox feature annotation, PRIME2.0, BigMHC-IM, the Łuksza/Balachandran fitness model (agretopicity + foreignness), and pVACtools tiering. Encodes the field's hard truths that immunogenicity is the least-solved layer (dedicated scores ~AUROC 0.6-0.7, modest PPV), that scores are valid only for RANKING within one patient (never absolute go/no-go or cross-patient), that DAI has anchor-inflation and WT-denominator traps, and that stacking weak correlated scores into one number is a red flag. Use when ordering a candidate list for a vaccine. Binding lives in mhc-binding-prediction; calling in neoantigen-prediction.

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Calls significant loops from protein-directed and targeted 3C assays (HiChIP, PLAC-seq, Capture Hi-C/PCHi-C, ChIA-PET) where the contact background is peak-anchored and coverage-biased, so generic Hi-C loop callers (cooltools dots, Juicer HiCCUPS) use the wrong null. Covers FitHiChIP (config-driven coverage+distance-decay spline regression, peak-to-peak vs peak-to-all foreground, loose vs stringent background, coverage vs ICE bias), MAPS (positive Poisson regression on bias factors for PLAC-seq/HiChIP), hichipper (restriction-site-distance bias model + library QC), CHiCAGO (Delaporte two-component Brownian+technical background for asymmetric bait x other-end Capture Hi-C), the with/without separate-ChIP anchor decision, and differential loops via diffloop. Use when calling loops from HiChIP/PLAC-seq/Capture Hi-C, choosing FitHiChIP/MAPS/CHiCAGO, picking peak-to-all vs peak-to-peak, setting the loop FDR, supplying ChIP peaks as anchors, QCing a HiChIP library, or comparing loops between conditions.

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Detects A/B chromatin compartments from balanced Hi-C contact matrices via eigenvector decomposition of the distance-normalized, Pearson-correlated cis matrix with cooltools (eigs_cis), then orients (phases) the compartment eigenvector against a GC or gene-density track so the active (A) sign is not arbitrary. Covers the eigenvector-is-a-choice problem (per-arm view_df to remove the centromere gradient; picking the eigenvector by max correlation with activity, not by eigenvalue), GC phasing with bioframe.frac_gc, resolution choice (100kb-1Mb), saddle plots and saddle_strength for compartmentalization strength, the cohesin-loss-strengthens-compartments result, subcompartments (SNIPER/Calder/dcHiC), and cross-condition compartment switching. Use when calling A/B compartments, computing E1/eigenvectors, phasing the eigenvector, building saddle plots, choosing a compartment resolution, quantifying compartment strength, or comparing compartmentalization across conditions.

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Detects acquired antimicrobial-resistance determinants and chromosomal point-mutation resistance in bacterial assemblies using AMRFinderPlus, ResFinder 4.0 (acquired + PointFinder), CARD-RGI, abritAMR, staramr, and species-specific callers (TB-Profiler, Mykrobe). Harmonises cross-tool output via hAMRonization, contextualises determinants with mobile-genetic-element annotation (MOB-suite, PlasmidFinder, MobileElementFinder, ICEberg), predicts phenotype against EUCAST or CLSI breakpoints, and translates calls into WHO GLASS reporting categories. Use when screening clinical or surveillance isolates for AMR, distinguishing acquired vs intrinsic vs point-mutation resistance, calling rpoB / katG / pncA / gyrA / mgrB mutations, reconciling AMRFinderPlus vs RGI vs ResFinder disagreement, contextualising carbapenemases or mcr alleles on plasmids, predicting susceptibility from genotype against the WHO Mtb 2nd-edition catalogue, or building a hAMRonized multi-lab AMR surveillance pipeline.

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Sort alignment files by coordinate or read name using samtools and pysam. Use when preparing BAM files for indexing, variant calling, or paired-end analysis.

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Mark and remove PCR/optical duplicates using samtools fixmate and markdup. Use when preparing alignments for variant calling or when duplicate reads would bias analysis.

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Analyzes alternative splicing from PacBio Iso-Seq (HiFi, Kinnex/MAS-Iso-seq) and Oxford Nanopore (direct cDNA, direct RNA, R10.4.1+) long-read RNA-seq with full-isoform resolution. Tools include FLAIR (correct/collapse/quantify/diffSplice for PacBio + ONT), IsoQuant (de-novo or annotation-guided isoform discovery 2024 SOTA), Bambu (annotation-aware Bayesian discovery + quantification with Novel Discovery Rate), SQANTI3 (isoform classification: FSM/ISM/NIC/NNC + artifact flags), rMATS-long (event calling on long-read isoforms), and minimap2 (-ax splice:hq for HiFi; -ax splice -k14 for ONT cDNA; add -uf only for direct RNA or stranded cDNA preps). Solves microexon detection, recursive splicing, complex multi-exon isoforms, and DTU without transcript-quantification uncertainty. Use when short-read AS limitations (anchor length, complex isoforms, microexons, recursive splicing, transcript ambiguity) demand full-isoform resolution.

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Build private, on-device AI features on iPhone, iPad, and Mac with Foundation Models, Core ML, MLX Swift, or llama.cpp. Use when choosing an Apple-local model runtime, building an Apple Intelligence chatbot or tool-calling feature, running an LLM on Apple Silicon, converting or compressing a Python model for Core ML, or comparing on-device inference backends. For Swift Core ML loading and prediction code, use the coreml skill.

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Read BEFORE writing any code that adds Additive White Gaussian Noise (AWGN) to signals and converts between SNR, Eb/No, Es/No, and per-subcarrier SNR for communications simulations, using awgn(), convertSNR(), berawgn(). The default MATLAB patterns for AWGN (e.g., 'measured' option, manual SNR formulas) produce subtly incorrect results. This skill specifies the correct calling conventions, required function usage, and critical anti-patterns that must be avoided.

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Use when importing or exporting vehicle data from/to log files (MDF/MF4/DAT, BLF, ASC/TXT), decoding CAN/CAN FD/LIN messages to signals via DBC, ARXML, or LDF databases, writing timetable data to MDF or BLF files, or calling blfread, blfinfo, blfwrite, mdfRead, mdfWrite, mdfCreate, mdfInfo, canSignalImport, canMessageImport, canMessageTimetable, canFDMessageTimetable, canSignalTimetable, or linMessageTimetable.

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Read BEFORE writing any code that builds or simulates OFDM systems. The default MATLAB patterns for OFDM (e.g., direct ifft/fft, awgn with 0 dBW power, missing symOffset) produce subtly incorrect results — always use ofdmmod/ofdmdemod instead of direct IFFT/FFT. This skill specifies the correct calling conventions for ofdmmod, ofdmdemod, ofdmChannelResponse, ofdmEqualize, and critical anti-patterns that must be avoided. Use when building OFDM transmitters or receivers, allocating subcarriers and guard bands, inserting pilots, computing SNR for OFDM, configuring fading channels (Rayleigh/Rician), estimating and equalizing channels, implementing timing and frequency synchronization, adding LDPC coding, designing resource grids, or setting up OFDM link simulations.

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CloudBase function runtime guide for building, deploying, and debugging your own Event Functions or HTTP Functions. This skill should be used when users need application runtime code on CloudBase, not when they are merely calling CloudBase official platform APIs.

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On-device LLM integration using Apple's Foundation Models framework. Use when implementing AI text generation, structured output, or tool calling.

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epigraHMM provides a set of tools for the analysis of epigenomic data based on hidden Markov Models. It contains two separate peak callers, one for consensus peaks from biological or technical replicates, and one for differential peaks from multi-replicate multi-condition experiments. In differential peak calling, epigraHMM provides window-specific posterior probabilities associated with every possible combinatorial pattern of read enrichment across conditions.

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Expert knowledge for Azure AI Custom Vision development including best practices, decision making, limits & quotas, security, integrations & coding patterns, and deployment. Use when exporting Custom Vision models, calling prediction APIs, using ONNX/TensorFlow, managing CMK/RBAC, or Smart Labeler, and other Azure AI Custom Vision related development tasks. Not for Azure AI Vision (use azure-ai-vision), Azure AI services (use microsoft-foundry-tools), Azure Machine Learning (use azure-machine-learning), Azure AI Foundry Local (use microsoft-foundry-local).

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Find the papers that answer a research query in Firecrawl's research paper index — a corpus of paper abstracts whose largest share is biomedical and life-science literature (PubMed, bioRxiv, medRxiv), alongside arXiv preprints in CS, physics, and math — using semantic search, semantic and structural expansion, and in-body verification. Use this skill for literature-finding and paper-retrieval tasks of any kind, including clinical, biomedical, drug, gene, disease, and other life-science questions, whether the answer is a single paper or a full multi-paper set. The index is reached only through the `firecrawl_research_*` MCP tools or the `firecrawl research` CLI subcommands. Calling `firecrawl_search` with its `categories` option set to `["research"]` is a different feature — it filters ordinary web search to research-affiliated websites (the list includes PubMed, bioRxiv, medRxiv, arXiv, and publisher sites) and returns page results from them, without querying the paper records in this index.

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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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This skill should be used when working with Vercel AI SDK, AI Gateway, streamText, generateText, generateObject, streamObject, tool calling, or AI SDK providers. Also relevant for "ai-sdk", "@ai-sdk/*" packages, or questions about AI SDK patterns, configuration, and best practices.

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Run AI apps via inference.sh CLI - image generation, video creation, LLMs, search, 3D, Twitter automation. Models: FLUX, Veo, Gemini, Grok, Claude, Seedance, OmniHuman, Tavily, Exa, OpenRouter, and many more. Use when running AI apps, generating images/videos, calling LLMs, web search, or automating Twitter. Triggers: inference.sh, infsh, ai model, run ai, serverless ai, ai api, flux, veo, claude api, image generation, video generation, openrouter, tavily, exa search, twitter api, grok

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Stop and consult this skill whenever your response would include specific facts about Anthropic's products. Covers: Claude Code (how to install, Node.js requirements, platform/OS support, MCP server integration, configuration), Claude API (function calling/tool use, batch processing, SDK usage, rate limits, pricing, models, streaming), and Claude.ai (Pro vs Team vs Enterprise plans, feature limits). Trigger this even for coding tasks that use the Anthropic SDK, content creation mentioning Claude capabilities or pricing, or LLM provider comparisons. Any time you would otherwise rely on memory for Anthropic product details, verify here instead — your training data may be outdated or wrong.

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