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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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Trains and applies base-resolution deep learning models on ChIP-seq / ChIP-nexus / CUT&RUN data. Uses BPNet (Avsec 2021 Nat Genet 53:354; soft motif syntax from ChIP-nexus), chromBPNet (Pampari A et al 2024 bioRxiv; bias-factorized base-resolution profiles), EnFormer (Avsec 2021 Nat Methods 18:1196; 196 kb input, ~100 kb effective receptive field), DeepSEA (Zhou 2015; multi-task CNN), and JASPAR 2026 deep-learning collection (1259 BPNet ChIP models). Performs in silico mutagenesis for variant-effect prediction, DeepLIFT/Grad attribution, and TF-MoDISco motif discovery from attribution scores. Use when predicting variant effects on TF binding, discovering soft motif syntax / cooperativity, integrating ChIP-seq with sequence-only predictions, or applying precomputed JASPAR Deep Learning models to new variants.

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Sequence-based deep learning for ATAC-seq using chromBPNet, BPNet, scBasset, or Enformer. Use when correcting Tn5 bias with neural networks beyond k-mer models, predicting per-base accessibility profiles, scoring in silico variant effects at GWAS or rare-variant SNPs, discovering motifs via DeepLIFT/TF-MoDISco from a trained model, or generating cell-type-specific accessibility predictions for unobserved cell states.

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Three modes for CS-conference papers (CVPR/ICCV/ECCV vision, ACL/EMNLP/NAACL NLP, ICLR/NeurIPS/ICML/AAAI ML). DIRECT-EDIT mode (common): the user describes a change in Chinese or English and the manuscript (LaTeX or Markdown) is edited directly through a CS-venue writing toolkit with author sign-off (use for 改这段 / 把中文想法写成 latex / polish / de-AI / translate / compress a passage). REVIEW mode (occasional, pre-submission): harden the paper through an adversarial courtroom review engine (N holistic domain reviewers / contestability routing / two-sided trial / three-way verdict / clerk-converged multi-round loop) with consensus-gated, author-signed revisions (use for review / critique / 审稿 / 评审 / mock-review). AUTO mode (unattended, opt-in via /goal): run the review-revise loop toward a verifiable goal, applying safe fixes under a drift-bounded policy and queueing risky ones. Resolves all inputs at runtime, no hardcoded paths. Not a from-scratch drafter (use ml-paper-writing) and not an official-venue rebuttal.

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Use when building reusable Obsidian glossary notes from an existing paper source manifest, optionally with a raw-sections override, especially when a reader needs a reviewed shortlist before glossary notes and article links are changed.

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Generate a high-quality deep-reading note for a single paper and write it into an Obsidian-style vault. Use when the user gives a paper title, DOI, URL, arXiv ID, Zotero item, or local PDF and wants a polished Markdown note with strong structure, evidence-based analysis, and figure placeholders.

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Report the compatibility redirect to `ap-worker`; this retired role cannot perform new work.

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Add Apple Pencil drawing with PKCanvasView, PKToolPicker, PKDrawing serialization/export, stroke inspection, and PencilKit/PaperKit handoffs. Use when building drawing apps, annotation features, handwriting capture, signature fields, content-version-safe ink workflows, or Apple Pencil-powered experiences on iOS/iPadOS/visionOS.

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Add drawings, shapes, and a consistent markup experience using PaperKit. Use when integrating PaperMarkupViewController for markup editing, adding shape recognition, working with PaperMarkup data models, embedding markup tools in document editors, or building annotation features that need the system-standard markup toolbar. New in iOS 26.

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Use when the user needs multi-source research with citation tracking, evidence persistence, and structured report generation. Triggers on "deep research", "comprehensive analysis", "research report", "compare X vs Y", "analyze trends", or "state of the art". Not for simple lookups, debugging, or questions answerable with 1-2 searches.

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This skill should be used when user asks to "improve my mAP", "why is my model overfitting", "my training is diverging", "read my results.csv", "interpret my training curves", "my AP50 is good but AP50-95 is bad", "my recall is low", "how do I pick learning rate", "which augmentations should I use", "should I use a bigger model", "tune hyperparameters", or asks how to train YOLO26 for detection, instance or semantic segmentation, pose, OBB, classification, or depth.

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This skill should be used when the user asks to "search for papers", "find research papers", "search arXiv", "search PubMed", "look up a DOI", "download a paper", "search IEEE", or "search Scopus".

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This skill should be used when user asks to "fetch overleaf review comments", "address overleaf reviews", "apply overleaf comments", "review my overleaf paper", "sync overleaf feedback to local", "what comments are on my overleaf doc", or wants to act on Overleaf reviewer feedback in a local git-tracked LaTeX repo.

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This skill should be used when the user asks to "set up paper search", reports "paper-search command not found", wants to "replace paper search MCP", or needs help with paper search credentials.

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Product research for dropshipping businesses. Identify profitable products with reliable suppliers, healthy margins, and manageable competition. Evaluates shipping times, return risk, and marketing viability.

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Competitor research — pricing comparison, bestseller analysis, differentiation strategy

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Competitor pricing strategy analysis and market positioning. Price mapping, pricing gaps identification, elasticity signals evaluation, and strategic pricing optimization. Use when the user asks about competitor pricing, price analysis, pricing strategy, or competitive pricing research.

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Cross-platform ecommerce competitor analysis and strategic intelligence. Multi-channel presence evaluation, strategy assessment, positioning analysis, and competitive benchmarking. Use when the user asks about competitor analysis, competitive research, market analysis, or competitive intelligence across platforms.

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Create or update a product-discovery SPEC (requirements doc) for user review. Use when turning RESEARCH findings plus user intent into a reviewable requirements artifact before INNOVATE/PLAN.

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Loop: find gaps → fix → repeat until agents find no gaps or a metric goal is hit. Shared loop primitive for PVL, EVL, and standalone quality runs.

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Fast codebase scouting using shell search and optional parallel research agents. Use for file discovery, task context gathering, and quick scoped searches across directories.

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Adversarial senior review of the spec before any code is written. Constructs a skeptical reviewer whose authority comes from the codebase, §R research, and live best-practice — then tries to REFUTE the spec, not rubber-stamp it. Every finding cites evidence (file:line or source); unverifiable ones are flagged. Survivors harden §V; the run ends in an explicit go / no-go gate. Triggers before building anything high-blast-radius, when the user says "review the spec", "red-team this", "is this plan sound", "senior review", or invokes /ck:review.

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Gather external knowledge the spec needs and distill it into §R — the durable research log — so build grounds in facts instead of hallucinating library behavior. Each finding cites a source; unsourced claims are flagged, never written as fact. Triggers when a spec decision hinges on a library/API/best practice the agent is unsure of, when the user says "research this", "what's the best lib for…", "check current best practice", or invokes /ck:research. Defers the §R write to the spec skill.

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Assists in writing high-quality content by conducting research, adding citations, improving hooks, iterating on outlines, and providing real-time feedback on each section. Transforms your writing process from solo effort to collaborative partnership.

日本語の概要は準備中です。原文の説明を表示しています。