Results for “code models”

Basecalls raw Oxford Nanopore signal (POD5/FAST5) into reads with Dorado, choosing the chemistry-matched model and accuracy tier (fast/hac/sup), requesting modified bases (5mCG_5hmCG, 6mA, m6A) at basecall time, and handling duplex, demultiplexing, trimming, and HERRO read correction. Covers why the model+version is an irreversible analysis decision, why methylation cannot be recovered later, and why downstream polish/variant models must match the basecaller. Use when converting POD5/FAST5 to reads, picking a Dorado model for R9/R10 or RNA004, enabling methylation calling, basecalling duplex, demultiplexing barcoded runs, or correcting reads for assembly.

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Reconstruct ancestral states at internal phylogenetic nodes for sequences (PAML codeml, IQ-TREE --ancestral, GRASP, FastML), discrete traits (corHMM hidden-rate Markov, ape::ace, phytools::make.simmap stochastic mapping, BayesTraits), and continuous traits (phytools::fastAnc, geiger Brownian/OU, RPANDA). Use when designing constructs for ancestral protein resurrection, tracing trait evolution along a tree, performing stochastic character mapping, testing models of trait evolution (BM vs OU vs EB), inferring ancestral genome content via Dollo or DTL reconciliation, or quantifying ancestral-state uncertainty for downstream comparative analyses.

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Predict RBP binding from RNA sequence using deep learning models (RBPNet sequence-to-signal, RNAProt RNN, GraphProt2 GCN with structure, DeepCLIP, DeepRiPe multi-modal CNN) for variant-effect prediction, in silico binding-site discovery, model interpretation, and transfer learning from CLIP and RBNS datasets. Use when computational prediction of RBP binding from sequence is needed, evaluating variant effects on binding without further wet-lab experiments, comparing model performance, or training a custom model on ENCODE eCLIP data.

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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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Implement, review, or improve CloudKit and iCloud sync in iOS/macOS apps. Use when working with CKContainer, CKRecord, CKQuery, CKSubscription, CKSyncEngine, CKShare, NSUbiquitousKeyValueStore, or iCloud Drive file coordination; when syncing SwiftData models via ModelConfiguration with cloudKitDatabase; when handling CKError codes for conflict resolution, network failures, or quota limits; or when checking iCloud account status before performing sync operations.

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Dielectric substrates, metal conductors, multi-layer stackups, and loss models (FR4, Rogers, Teflon) for RF PCB simulation. TRIGGER: user asks to set up a substrate, define dielectric properties, create a stackup, select a PCB material (FR4, Rogers, Teflon, etc.), or configure metal conductors. Invoke BEFORE writing dielectric() or metal() code — the API for named vs custom materials differs significantly. SKIP: PCB layout assembly (use matlab-assemble-pcb-layout), transmission line design (use matlab-design-pcb-transmission-line), EM analysis (use matlab-analyze-em), importing a PCB file (use matlab-read-pcb-layout).

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MongoDB schema design patterns and anti-patterns. Use when designing data models, reviewing schemas, migrating from SQL, or troubleshooting performance issues caused by schema problems. Triggers on "design schema", "embed vs reference", "MongoDB data model", "schema review", "unbounded arrays", "one-to-many", "tree structure", "16MB limit", "schema validation", "JSON Schema", "time series", "schema migration", "polymorphic", "TTL", "data lifecycle", "archive", "index explosion", "unnecessary indexes", "approximation pattern", "document versioning".

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Use this skill for WeChat Mini Program AI via wx.cloud.extend.AI (小程序, wx.cloud apps). Covers generateText and streamText with callbacks (onText, onEvent, onFinish); streamText needs a data wrapper, generateText returns the raw response. Models via wx.cloud.extend.AI.createModel with groups hunyuan-exp (小程序成长计划), cloudbase (main managed), or custom-*; model id goes in the data wrapper `model` field. MUST run two-step preflight before code — see body. NOT for browser/Web (use ai-model-web), Node.js backend (use ai-model-nodejs), or image generation (use ai-model-nodejs).

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Produce a detailed report on APIError events from Agent Monitor data — counts over time, which sessions and models are affected, and the likely root cause (rate limits, overload/529, or context-window pressure) inferred from each event's summary and data payload. Use when API errors spike or when you need to explain why requests are failing.

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Adds Dataverse tables to a Power Apps code app with generated TypeScript models and services. Can also create new Dataverse tables. Use when connecting to Dataverse, adding tables, creating schema, or querying Dataverse data.

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Detect whether an API endpoint is backed by genuine Claude (not a wrapper, proxy, or impersonator) using 9 weighted rule-based checks that mirror the claude-verify project. Also extracts injected system prompts from providers that override Claude's identity. Fully self-contained — copy the code below and run, no extra packages beyond httpx. Use when the user wants to verify a Claude API key or endpoint, check if a third-party Claude service is authentic, audit API providers for Claude authenticity, test multiple models in parallel, or discover what system prompt a provider has injected.

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Edit mathematically, empirically, or technically dense papers for readers outside the author’s specialty, including empirical legal scholarship, law-and-economics models, and legal-technology research. Clarifies terminology, antecedents, study design, and claim–statistic relationships while checking equations, numbers, quotations, and citations against the source. Use to clarify exposition or de-jargonize a technical draft; not to rewrite briefs or doctrinal arguments. Produces an edited draft and audit memo. Full integrity checks and original-format rendering require suitable extraction, code execution, and document tools; otherwise provides proposed edits with verification limits disclosed.

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Extend / continue a video temporally with Pusa 2.2 in ComfyUI. Temporal flowmatching (the flowmatch_pusa scheduler + WanVideoAddPusaNoise) on the WanVideoWrapper stack with WAN 2.2 T2V A14B (HIGH/LOW) models and the Pusa V1 LoRAs, conditioning on the loaded clip via WanVideoEncode so the existing motion carries into the continuation. Covers the kijai wanvideo_2_2_14B_Pusa_extension graph, model/LoRA slots + downloads, noise/length/scheduler settings, chaining multiple extensions, VRAM tiers, gotchas, and the extend→upscale handoff.

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Curated download URLs and target directories, organized by family (Flux, WAN, LTX, Qwen, Z-Image, SD15/SDXL), for every model the comfyui-mcp skills reference, covering checkpoints, VAEs, text encoders, and LoRAs. Use when downloading models with download_model (action:"download" / action:"download_civitai"), when a workflow fails with a missing-model error, or when setting up a new machine.

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Pick the right ComfyUI startup flags for VRAM, attention, caching, and speed. The full decision matrix for OOM (--novram / --cache-none / --disable-smart-memory), shared-VRAM creep on Windows (--reserve-vram N), model-switching with big text encoders (--cache-none), high-VRAM throughput (--gpu-only / --highvram), and attention-backend selection (--use-sage-attention for speed, --use-pytorch-cross-attention as the highest-quality / Z-Image-safe fallback). Also the acceleration-stack + Blackwell/RTX 5000 (sm_120) notes. Use when a graph OOMs (especially long video like LTX 2 / WAN), when the GPU spills into shared VRAM and slows to a crawl, when switching between models eats all RAM, when Z-Image produces black/garbled output under Sage, or when deciding which attention backend to launch with. Flag names verified against upstream comfy/cli_args.py; see Sources.

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Build Ideogram 4 (Ideogram Ultra) txt2img and img2img workflows with the local open-weights model, dual conditional/unconditional models with DualModelGuider, Qwen3-VL text encoder, and structured JSON ("compositional deconstruction") prompts for strong text rendering and layout control

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Upscale and restore video in ComfyUI. Both the quick local path (per-frame ESRGAN like 4x_foolhardy_Remacri via ImageUpscaleWithModel + 4x→2x supersample, with its temporal-flicker tradeoff) and temporal-aware super-resolution (SeedVR2, the newer FlashVSR) with the downscale-first restore pipeline; RIFE/FILM frame interpolation via the BUILT-IN ComfyUI 0.26 FrameInterpolate (rife_v4.26 in models/frame_interpolation/) or the ComfyUI-Frame-Interpolation pack; 2x/4x scaling, VRAM tiers, VHS encode. Captures the classic downscale→SeedVR2→RIFE recipe and the current 2026 recommendation.

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SwiftData class inheritance patterns for hierarchical models with type-based querying, polymorphic relationships, and when to choose inheritance vs enums. Use when designing SwiftData model hierarchies.

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Generate test fixture factories for your models. Builder pattern and static factories for zero-boilerplate test data. Use when tests need sample data setup.

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Generates technical architecture specification from PRD. Covers architecture pattern, tech stack, data models, and app structure. Use when creating ARCHITECTURE.md or designing system architecture.

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Guide to macOS 26 Tahoe APIs and features. Covers Apple Intelligence (FoundationModels), MLX framework, and Continuity. Use when implementing macOS 26 specific features.

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Deep dive into SwiftData design patterns and best practices. Covers schema design, query patterns, repository pattern, and performance optimization. Use when designing data models or improving SwiftData usage.

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Core ML, Create ML, Vision framework, Natural Language framework, on-device ML integration. Use when user wants image classification, text analysis, object detection, sound classification, model optimization, or custom model integration. Covers Core ML vs Foundation Models decision.

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Security category index for Apple platforms. Routes to the privacy-manifests skill. General secure-storage/biometrics/ATS guidance was retired in the 2026 blind-test audit — current models cover it natively.

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