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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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Analyzes alternative splicing at single-cell resolution. The first decision is library chemistry — 10X 3' is fundamentally limited (RT primes from poly-A, R2 falls in 3' UTR, <0.1 junction read per cell per AS event). Plate-based full-length methods (Smart-seq3, FLASH-seq, VASA-seq, STORM-seq) and single-cell long-read (MAS-Iso-seq, scISOr-Seq2) are the chemistries that give per-cell isoform structure. Tools include MARVEL (R, Smart-seq integrated), BRIE2 (Bayesian PSI with regulatory features and ELBO_gain test), scQuint (junction-cluster, plate-based; not for 10X), SpliZ (annotation-free Z-score), Psix (graph-smoothness regulated AS), and Sierra (alternative polyadenylation, often confused with AS). Use when analyzing isoform usage in scRNA-seq, identifying cell-type-specific splicing, or determining whether scRNA-seq chemistry supports splicing analysis at all.

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Quantifies alternative splicing as PSI (percent spliced in) from RNA-seq using rMATS-turbo (BAM-based event), SUPPA2 (TPM-based event), MAJIQ V3 (LSV-based Bayesian), leafcutter (annotation-free intron clusters), VAST-TOOLS (cross-species with microexon support), Shiba (junction-imbalance-corrected, 2025 SOTA at low coverage), or IRFinder-S (intron retention coverage-aware). Distinguishes the five canonical event classes (SE, A5SS, A3SS, MXE, RI), special classes (microexons, exitrons, AFE/ALE), intron retention subtypes (canonical RI vs detained introns), and applies effective-length normalization. Use when measuring splice-site usage or isoform inclusion ratios from short-read RNA-seq.

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Microstrip, stripline, CPW, differential pairs, and crosstalk analysis for impedance-controlled PCB interconnects. TRIGGER: user asks to design or analyze a transmission line (microstrip, stripline, CPW, coplanar, differential pair), extract RLGC or per-unit-length parameters, compute trace impedance, analyze a PCB trace cross-section, or perform crosstalk/coupling analysis. Invoke BEFORE writing code — preferred over RF Toolbox analytical functions (txlineMicrostrip, txlineStripline, txlineCPW). SKIP: EM simulation/S-parameter extraction of an existing component (use matlab-analyze-em), material/stackup definition only (use matlab-manage-pcb-material), building custom non-catalog geometry (use matlab-assemble-pcb-layout), optimization sweeps (use matlab-optimize-pcb-design).

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Perform aerospace unit conversions, time conversions, coordinate frame transformations, and rotation representations using Aerospace Toolbox. Use when converting units (length, velocity, angle, acceleration, angular velocity, force, mass, pressure, temperature, density), computing Julian dates or decimal years, transforming between coordinate frames (ECEF, ECI, LLA, flat Earth, geodetic/geocentric, NED, body, wind, stability), or working with rotation representations (Euler angles, DCM, quaternion, Rodrigues vector). Also use when the user asks about aerospace coordinate systems, reference frames, or rotation conventions.

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When the user wants to choose an SEO-friendly domain for a new site—brand vs keyword domain, TLD selection, or domain best practices. Also use when the user mentions "domain choice," "pick domain," "SEO-friendly domain," "brand domain," "EMD," "PMD," "exact match domain," "partial match domain," "TLD," ".ai domain," ".com vs .io," "domain length," "domain history," or "defensive domain registration." For migration, use rebranding-strategy.

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When the user wants to write, audit, or optimize a meta description, SEO description, SERP snippet candidate, duplicate description, description length, or description rewrite issue. For a sitewide metadata lifecycle including implementation and production validation, use page-metadata.

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When the user wants to optimize content for SEO—word count, H2 keywords, keyword density, multimedia, tables, lists. Also use when the user mentions "content length," "word count," "keyword stuffing," "H2 keywords," "keyword density," "tables," "bullet points," or "content structure." For keywords, use keyword-research.

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Use when a task involves running a Scenario workflow through MCP, including anything the user calls a Scenario app, a saved pipeline, or a multi-step generation graph. Triggers include listing workflows, building workflow_run's inputs object, pricing a run with a dry run, approving or rejecting a stuck approval node, a run rejected for input length, or a workflows_list reply flooding the context. Creating or editing graphs is scenario-workflow-authoring. Keywords: workflow, app, approval gate.

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Use when generating or handling audio on Scenario via MCP. Triggers include music tracks, full-length songs with vocals written from lyrics, background scores, soundtracks, game sound effects, SFX, foley, ambience, looping audio, voiceover, narration, speech, TTS, text-to-speech, dialogue, voice cloning, re-voicing a recording, scoring or adding sound to a video, transcription, or requests to create, wait on, play, or download audio files (MP3, WAV) with Scenario tools.

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Use when generating or editing images with Scenario through MCP: text-to-image, image-to-image, instruction editing, inpainting or outpainting with a mask, background control, aspect ratio or resolution sizing, several outputs per run, or choosing between Scenario image models. Also when a run fails on prompt length, a plan-restricted model, or a reference image that was silently ignored. Keywords: txt2img, img2img, image edit, inpaint, mask, reference image, aspect ratio.

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Patterns for individual long-form content pieces. Case studies, whitepapers, research reports, definitive guides, manifestos, ebooks, long-form tutorials. The structural disciplines that distinguish publication-quality long-form from bloggy-long padding or academic bloat. Different from pillar-content-architecture (which covers hub structure); this skill covers individual deep-dive pieces. Triggers on long-form content, case study writing, whitepaper, research report, definitive guide, ebook, manifesto, long-form tutorial, deep-dive article, anchor piece, foundational article, structural archetypes. Also triggers when a piece is over 3,000 words and the team is unsure how to structure it, when a long-form draft feels padded or saggy, or when a flagship asset needs the depth to actually earn the length.

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Rigorous multi-pass editor for law review articles, student notes, seminar papers and other legal scholarship. Runs six specialized passes — structure, substantive critique, Bluebook citations, grammar and clarity, fact-checking against sources, and a synthesizing memo — and delivers an editorial memo with issues prioritized as critical, substantial or minor and keyed to specific footnotes and paragraphs. Handles articles of any length, including 50,000-word pieces, by chunking on section boundaries. Reads .docx directly. Use when editing, critiquing, workshopping or pre-submission-reviewing academic legal writing. Triggers on "edit my article," "review this draft," "critique my note," "check my Bluebook citations," "is my argument sound," "read my law review piece," "workshop this paper," "pre-submission review." Chunking needs Python 3; fact-checking needs web search; both degrade gracefully without.

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Clean up translation-ese and AI-writing tics in Korean prose so it reads like a person wrote it — content (facts, numbers, proper nouns, quotes) stays 100% unchanged, only style and rhythm are touched. Single-pass, done in this session. Triggers — AI 티 없애줘, 번역투 고쳐줘, 한글 자연스럽게 윤문해줘, sounds like a machine translation, remove AI tells from this Korean text, make this Korean read naturally. Not for: marketing copy generation (write it clean the first time — see rules/korean-writing-quality.md), English text, plain spell-check (see korean-spell-check), or book-length manuscripts.

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Adapt a historical primary source for classroom use — modifying complexity and length while preserving features for sourcing, close reading, and corroboration. Use when a primary source is too complex for the target age group.

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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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Method for scalable identification of spatially variable genes (SVGs) in spatially-resolved transcriptomics data. The method is based on nearest-neighbor Gaussian processes and uses the BRISC algorithm for model fitting and parameter estimation. Allows identification and ranking of SVGs with flexible length scales across a tissue slide or within spatial domains defined by covariates. Scales linearly with the number of spatial locations and can be applied to datasets containing thousands or more

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The package CellBarcode performs Cellular DNA Barcode analysis. It can handle all kinds of DNA barcodes, as long as the barcode is within a single sequencing read and has a pattern that can be matched by a regular expression. \code{CellBarcode} can handle barcodes with flexible lengths, with or without UMI (unique molecular identifier). This tool also can be used for pre-processing some amplicon data such as CRISPR gRNA screening, immune repertoire sequencing, and metagenome data.

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Enforce complexity and size limits on Swift code with SwiftLint threshold rules — cyclomatic complexity, function/type/file length, parameter count — adopted via a violations baseline so existing code never blocks. Use when agent-written code needs deterministic size constraints.

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SOLID principles checklist with Java examples. Use when a class has too many responsibilities, an abstraction leaks, or a dependency points the wrong way, and when the user asks about Single Responsibility, Open/Closed, Liskov, Interface Segregation or Dependency Inversion. For naming, duplication and method length, use clean-code instead.

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Weekly, on a Friday, read only everywhere. Scores the week from the kit's own ledgers with a source path beside every number, cuts it by platform, framework, pillar, slot time, and post length, rewrites the drafting standards from that evidence and from nothing else, replays the browser flows the other routines depend on, and files exactly one thing to stop and one to do more of. It publishes only where you released the channel, never replies, spends only where you released it, never touches a credential, and never writes a number it did not measure.

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Measures whether an automation suite builds release confidence via feedback-loop length, suite reliability, release cadence, and production escape rate, and emits a release_confidence verdict. Use when judging suite value, ROI, or pre-release trust; not for writing or healing tests.

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最大行长度过滤器。过滤器将最大行长度的样本保持在特定范围内。支持对JSONL格式数据指定字段进行过滤。 本SKILL使用依赖data_juicer，请在调用前安装好python环境并安装data_juicer，你可用以下指令进行安装： pip install py-data-juicer 当用户提到最大行长度过滤、文本行长筛选、最长行过滤、按行长度过滤等需求时使用此skill。

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平均行长度过滤器。过滤文本平均行长度不在指定范围内的样本。 当用户提到行长度过滤、平均行长度、文本行长度筛选、按行筛选等需求时使用此skill。 即使用户没有明确说出"平均行长度"，只要任务涉及根据文本中每行的平均长度来筛选数据， 就应该使用此skill。

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