设计技能

Provider-independent character design and continuity direction for generated media. Use when an agent must create, preserve, revise, or QA a recurring character across AI-generated images, video clips, avatars, animation, comics, ads, product mascots, serialized social posts, or multi-shot campaigns; especially when building character bibles, reference packs, prompts, expression/pose ranges, costume/hair/makeup/prop continuity, identity and likeness safeguards, iteration plans, handoff notes, or continuity reviews.

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Provider-independent production design direction for AI-generated media. Use when translating narrative, brand, advertising, product, social, film, or worldbuilding intent into sets, locations, props, color and material palettes, era research, graphic and environmental design, continuity bibles, image/video prompt planning, reference strategy, production constraints, iteration notes, handoff specs, and QA.

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Run a complete design workflow -- from establishing context through four progressive design levels (Capabilities, Components, Interactions, Contracts) to an approved blueprint. Composes knowledge-priming, context-anchoring, learning-harvest, collaborative-judgment, design-first, architecture, and domain-driven-design into one process. Handles both new features (create context doc) and resuming existing work (load context doc). Level 5 (Implementation) is delegated to code-forge. Use when starting a design, planning architecture, or when the user says 'design a feature', 'blueprint', 'start designing', 'plan the architecture', or 'let's design before coding'.

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Manage per-feature living documents that capture decisions, constraints, and reasoning across AI sessions during active development. Scoped to feature-level work — design, implementation, bugfix, refactor — not for codebase-wide assessments or product-wide specifications (those define their own document lifecycles). Handles creating new context documents, loading existing ones, and enriching them with new decisions. Use when starting a new feature, resuming work, making technical decisions, resolving questions, or when context needs to persist across sessions. Use this skill whenever the user mentions 'load context', 'update context', 'context doc', 'decisions', 'continue where we left off', 'what did we decide', or 'capture this decision'.

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Enforce architectural rules when generating or modifying code, and validate proposed designs before approval (design mode). Defaults to clean architecture; supports any architecture style via the architecture-refiner. Validates layer responsibilities, dependency direction, and structural constraints using the loaded architecture rules. Use when generating code, reviewing architecture, creating new files, or when the user mentions 'architecture', 'layers', 'structure', 'dependency rules', 'hexagonal architecture', 'ports and adapters', 'modular monolith', or 'onion architecture'. Also use when reviewing generated code for structural compliance.

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Protocol for handling ambiguous decisions and missing/conflicting knowledge during code generation, design, and review. Ensures AI surfaces genuine judgment calls with structured options and stops on hallucination risk instead of silently assuming. Use when a decision has multiple valid approaches, when facts are missing or contradictory, when the user asks 'what should we do here?', 'is this a judgment call?', 'should I ask about this?', 'am I guessing here?', 'what are the tradeoffs?', or when deciding between two reasonable architectural or design options. Also composed by molecules to define how judgment calls and clarification requests are surfaced and resolved.

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Apply DDD tactical patterns when working with domain code, and validate proposed domain models before approval (design mode). Enforces aggregate design, value objects over primitives, entity identity rules, and bounded context boundaries. Use when creating or modifying domain models, designing aggregates, working in the domain layer, or when the user mentions 'domain', 'aggregate', 'value object', 'entity', 'bounded context', or 'DDD'.

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Facilitate a structured conversation to define DDD guardrails for domain design within a repository. Produces a formal ddd-principles.md document that the domain-driven-design atom will use as its override. Use when setting up domain design principles, defining aggregate rules, or when the user says 'setup DDD', 'define domain rules', 'DDD principles', or 'help me define my domain patterns'.

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Validate any Lattice SKILL.md against all tier conventions — atoms, molecules, and refiners. Catches structural errors, broken cross-references, and convention violations before they reach the repo. If you just wrote or modified a Lattice skill file and haven't run this yet, run it now — manual review consistently misses the same categories of errors this skill is specifically designed to catch. Use when the user says 'validate this skill', 'check this skill', 'does this follow conventions', 'review this skill file', 'check my SKILL.md', or 'skill validate'. Reports PASS/FAIL with specific file-and-section findings and actionable fixes. Standalone — does not call other skills.

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Guide structured design thinking through 5 progressive levels before any code is written. Levels: Capabilities, Components, Interactions, Contracts, Implementation. Use when building new features, refactoring significant code, designing modules, or when the user says 'design this', 'architect this', 'let's think before coding', 'walk me through the design', or 'whiteboard this'. For simple utilities enter at Level 4 (Contracts), for single-component tasks at Level 2 — see Complexity Calibration. Do not use for quick bug patches.

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Generate structured feature specifications through a collaborative product interview. Acts as a senior PM and business analyst pair — arrives with a point of view, challenges scope, proposes options at every decision. Composes the requirement-quality atom for spec quality enforcement and collaborative-judgment for surfacing genuine decisions. Produces an epic/feature hierarchy in .lattice/requirements/ that serves as direct input to design-blueprint. Use when the user says 'forge requirements', 'write requirements', 'spec this feature', 'create a feature spec', 'define this epic', 'write a PRD', 'spec out what we are building', or 'requirement forge'.

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Apply requirement quality principles when generating or validating feature specifications. Enforces feature completeness, scenario structure, AC verifiability, feature independence, and implementation slice quality. Use when writing feature specs, validating existing requirements, or when the user mentions 'validate this spec', 'check this feature', 'requirement quality', 'is this spec complete', or 'requirement-quality'. This skill governs the craft of writing individual feature specifications — not technical design (see design-blueprint), not implementation (see code-forge).

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Analyzes CRISPR drug-modifier (chemogenomic) screens with drugZ (Li & Hart 2019 Genome Med), a bidirectional Z-score method that identifies synthetic-lethal sensitizing genes and resistance-conferring suppressor genes from vehicle vs drug comparisons. Covers vehicle-anchored design (not Day-0), the bidirectional Z math giving 2-3x sensitivity over MAGeCK / STARS / edgeR / RIGER on drug screens, per-gene sumZ and normZ, synth (sensitizer) vs supp (suppressor) FDR, multi-dose handling, integration with control sgRNAs, and comparison with MAGeCK MLE with dose covariate. Use when running a drug-modifier CRISPR screen, identifying sensitizing or resistance genes for a drug candidate, choosing drugZ vs MAGeCK MLE for chemogenomic analysis, troubleshooting low-effect drug screens where MAGeCK lacks sensitivity, or designing a drug-screen layout (vehicle vs drug arms).

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Exports publication-ready figures in various formats with proper resolution, sizing, and typography. Use when preparing figures for journal submission, creating vector graphics for presentations, or ensuring consistent figure styling across analyses.

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Predict B-cell and T-cell epitopes using BepiPred, IEDB tools, and structure-based methods for vaccine and antibody design. Identify immunogenic regions in antigens. Use when designing vaccines, mapping antibody binding sites, or predicting immunogenic peptides.

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Designs covalent inhibitors and warheads targeting cysteine (most common, 98% of covalent drugs), lysine, serine, threonine, tyrosine, and aspartate residues, with explicit handling of warhead reactivity (acrylamide, chloroacetamide, vinyl sulfone, sulfonyl fluoride, fluorosulfate, aldehyde, boronate, nitrile), reversibility (kinact/Ki, t_residence), glutathione (GSH) stability, intrinsic reactivity assays, and covalent docking (DOCKovalent, GOLD, HCovDock). Use when designing covalent inhibitors for targeted covalent inhibition (TCI), KRAS G12C-style approaches, or rationalizing covalent SAR.

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Quantifies CRISPR editing outcomes with CRISPResso2 (Clement 2019 Nat Biotechnol) across Cas9-nuclease (indels, HDR), CBE and ABE base editors (target conversion + bystander), and prime editor (pegRNA-templated) modes. Covers single-amplicon (CRISPResso), multi-sample batch (CRISPRessoBatch), pooled-amplicon (CRISPRessoPooled), WGS off-target (CRISPRessoWGS), and sample-comparison (CRISPRessoCompare) workflows; quantification-window math that controls what is called edited; substitution-vs-indel diagnostic to distinguish BE from Cas9 contamination; MMEJ deletion pattern interpretation; allele-frequency tables; and failure modes from amplicon misalignment or contamination. Use when quantifying editing from amplicon sequencing, choosing CRISPResso mode by design, distinguishing intended edits from bystanders and indel byproducts, debugging low-alignment runs, or generating publication-grade editing reports.

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Discover RBP binding motifs from CLIP-seq peaks or single-nucleotide crosslink sites using HOMER, MEME/STREME, kpLogo, mCross (CL-position-registered motifs), PEKA (positional k-mer enrichment), RBPamp (affinity), and RNA Bind-n-Seq (RBNS) cross-validation. Use when characterizing RBP sequence specificity, registering motifs to crosslink positions, validating in vivo CLIP motifs against in vitro RBNS Kd, reconciling motif disagreements across tools, or correcting for the uracil crosslinking bias that contaminates raw CLIP motif logos.

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Infer orthologous genes and gene families across species using OrthoFinder3 (HOG-based phylogenetic orthology), SonicParanoid2, Broccoli, ProteinOrtho, OMA / FastOMA hierarchical orthologous groups, eggNOG-mapper, JustOrthologs, and TOGA whole-genome-alignment orthology. Use when building single-copy ortholog sets for phylogenomics, classifying co-orthologs and in/out-paralogs after gene duplication, propagating functional annotation via orthology with awareness of the ortholog conjecture, distinguishing speciation from duplication via gene-tree species-tree reconciliation, computing Quest-for-Orthologs benchmark performance, or running synteny-aware ortholog detection in WGD-affected lineages.

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Batch effect correction for CRISPR screens covering ComBat empirical-Bayes, RUV, SVA, control-sgRNA normalization, and the model-based alternative of including batch as a covariate in MAGeCK MLE or Chronos. Covers screen-specific batch sources (passage cohort, library lot, infection day, sequencing run, Cas9 lot, FBS lot), PCA + variance-decomposition diagnostic to decide if correction is needed, when correction harms biology by over-correcting condition into batch, limma removeBatchEffect for visualization-only correction, and relationship to multi-condition design matrices. Use when combining screens for joint analysis, when passage cohort confounds biology, when DepMap-style panels need Chronos with batch covariates, when picking ComBat vs RUV, or when correction harms biology and should be replaced with explicit covariate modeling.

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Designs experiments to minimize and account for batch effects using balanced layouts and blocking strategies. Use when planning multi-batch experiments, assigning samples to sequencing lanes, or designing studies where technical variation could confound biological signals.

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Analyzes base-editing screens for variant function. Covers library design (Sanson 2020 GRACE, Hanna 2021 BRCA1/2 SNV scanning, Cuella-Martin 2021), CBE vs ABE chemistry choice (BE3/BE4 vs ABE7.10/ABE8.20/ABE8e), editing-window math (positions 4-8 from PAM-distal end, wider for ABE8e), bystander-edit quantification and the variant-call ambiguity it creates, sgRNA-efficiency filtering before hit calling, indel byproduct interpretation, the substitution-vs-indel diagnostic, variant annotation against ClinVar / COSMIC, and the Broad be-validation-pipeline. Use when designing a BE variant screen, choosing CBE vs ABE for a specific edit, interpreting bystander-confounded hits, distinguishing functional signal from indel artifact, integrating CRISPResso2 output with screen scoring, or deciding BE vs PE for SNV installation.

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Design guides for cytosine and adenine base editing using editing window optimization and BE-Hive outcome prediction. Select optimal positions for C-to-T or A-to-G conversions without double-strand breaks. Use when designing base editor experiments for precise nucleotide changes.

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Analyze DNA/RNA/protein sequences. Use when the user provides a sequence and asks for analysis, translation, GC content, ORFs, motifs, restriction sites, or primer design. Triggers on "sequence", "translate", "GC content", "ORF", "primer", "restriction", "complement", "reverse complement".

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