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Access a collection of open-source molecular design and structural biology tools on the Tamarind Bio platform, via its REST API or MCP server — no local GPUs required. Tamarind bundles popular open-source models for structure prediction (AlphaFold, Boltz, Chai, ESMFold), protein, binder, and de novo design (RFdiffusion, ProteinMPNN, BoltzGen), antibody and nanobody design and developability, protein-ligand docking (DiffDock, Autodock Vina), binding-affinity prediction, MSA generation, and molecular dynamics. Use when the user mentions Tamarind or tamarind.bio, wants to run any of these open-source tools in the cloud, references app.tamarind.bio/api or the x-api-key header, or needs to submit batches of sequences for structural or biophysical characterization.

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Design new proteins that bind a chosen surface, using BindCraft's AlphaFold2-guided hallucination or the RFdiffusion backbone plus ProteinMPNN sequence pipeline. Use this skill to specify a target epitope by hotspot residue, trim a receptor to the region worth designing against, set up a design campaign, and filter the output on the in-silico metrics that predict experimental success — interface predicted TM-score, predicted aligned error at the interface, buried surface area, and shape complementarity. Also trigger on BindCraft, RFdiffusion, ProteinMPNN, minibinder, hallucination, inverse folding, hotspot residue, epitope targeting, ipTM, or de novo binder.

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Turn a set of structures into absorption, distribution, metabolism, excretion, and toxicity estimates with ADMET-AI, and read them as a developability verdict rather than a table of numbers. Use this skill to run batch prediction over a library, interpret each endpoint against its DrugBank-approved percentile, and flag the liabilities that stop a series — hERG blockade, CYP inhibition, poor Caco-2 permeability, high clearance, and plasma protein binding. Also trigger on ADMET-AI, admet_ai, Chemprop-RDKit, hERG liability, CYP3A4 inhibition, Caco-2, bioavailability prediction, or developability triage.

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Use Therapeutics Data Commons through the PyTDC Python package for registry discovery, approved dataset access, task-aware splits (scaffold, cold-start, temporal, combination), evaluator metrics, benchmark groups, and bounded molecular-oracle workflows. Use this skill to find which TDC datasets exist for a therapeutic task, load them with a split that does not leak, score predictions with the task's own official metric rather than a generic one, and run benchmark groups reproducibly. Also trigger on PyTDC, Therapeutics Data Commons, tdc.single_pred, tdc.multi_pred, ADMET Benchmark Group, scaffold split, get_split, or molecular oracles such as GSK3B, JNK3 and DRD2.

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Generate cinematic case study pages for films, documentaries, photography portfolios, and creative projects — film-frame hero images, structured crew credit grids, dark footage galleries, festival award sections, scroll-choreographed reveals via data-attribute animation orchestration. Warm cream palette with analog typography. Single-file HTML, zero build step. Triggers on film case study, documentary showcase, filmmaker portfolio, production company website, film credits page, creative project case study, director portfolio, photography case study.

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Independent re-derivation gate for proposed changes during autonomous execution. Evaluates a change (code diff, config edit, engine evolution, schema change) against the work's authority matrix and a 4-check protocol: invariant compliance, scope authorization, detection narrowness, and regression risk. Returns structured JSON with pass/fail per check, an overall verdict (APPROVE / REQUEST_CHANGES / REJECT), and blockers. Profile-driven thresholds (strict for unattended runs, lenient for desk supervision). Use when an autonomous agent proposes an engine change, when reviewing a Claude Code-authored modification before merge, or when an unattended profile requires independent re-derivation. Trigger on: "review/approve this proposed change," "critic-gate this," "is this change safe," "is this safe to merge," "should I let this land," "run the critic." Do NOT use for handoff-readiness checks (use rootnode-handoff-trigger-check), general code review, or design-time correctness. Authority matrix required.

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Detects seven structural anti-patterns in Claude Projects that cause unpredictable output, ignored instructions, and degraded quality. Diagnoses Monolith, Orphan File, Echo Chamber, Phantom Conversation, Kitchen Sink, Misaligned Hierarchy, and Blurred Layers. Use when user says "what's wrong with my project," "Claude ignores my instructions," "diagnose my project," "why is output inconsistent," "review my project setup." Also trigger on symptom-phrased: "Claude doesn't follow my rules," "my instructions keep getting overridden," "my Project isn't behaving as designed." Use alongside rootnode-project-audit if available for deeper structural analysis. Activate whenever the user describes symptoms of unreliable, inconsistent, or degraded Claude Project output, even if they do not name a specific pattern. Do NOT use when the user's primary request is Memory-layer rebalancing (use rootnode-memory-optimization if available) or scoring a single prompt (use rootnode-prompt-validation if available).

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Audits and optimizes the five global Claude layers (User Preferences, Styles, Global Memory, Skills, MCP Connectors) using the Global Layer Scorecard (six dimensions, anchored 1-5 rubrics). Detects eight cross-layer failure modes and produces evolutionary recommendations (Promotion, Demotion, Codification, Skill Extraction). Use when user says "audit my global setup," "optimize my preferences," "review my Claude configuration," "check my cross-project setup," "are my preferences working," "clean up my global memory," or "what should be in my preferences vs my project." Also use when a user has 3+ Projects and wants to improve their shared foundation. Do NOT use for single-Project audits, Project Memory optimization, or full-stack audits (use rootnode-project-audit, rootnode-memory-optimization, or rootnode-full-stack-audit respectively, if available). Run on Opus 5 or Sonnet 5 at `high` effort (both defaults); depth reduces on legacy models.

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AI pressure redirection — handling conflicting demands, tool failures, and competing constraints by blending with incoming force then reframing. Use when receiving contradictory instructions from different sources, during tool failure cascades where the planned approach becomes unviable, when scope pressure threatens to expand the task beyond what was asked, or when user frustration or correction needs to be absorbed rather than deflected.

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Design a generative recipe DSL so agents emit small validated JSON documents and ONE audited interpreter renders them all — data, not code. Covers the N-artifacts threshold for choosing a DSL over bespoke code, designing roles as style slots so a single recipe renders unchanged in every output style, the validator gate (compile + bounds + real render in all styles, plus a --fast mode for corpus-wide sweeps), hand-authored seed recipes, and the emergent conventions that keep a corpus of hundreds consistent without per-item steering. Use when many similar artifacts (icons, status badges, diagram nodes, test fixtures) must be generated by agents, when per-item bespoke code is multiplying unreviewable code paths, or when a whole corpus must be re-rendered cheaply into new styles.

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Forecast infrastructure and application metrics using Prophet or statsmodels for capacity planning, cost optimization, and proactive scaling. Visualize predictions in Grafana and set up alerts for projected resource exhaustion. Use when forecasting infrastructure capacity needs for CPU, memory, or disk, planning hardware procurement for next quarter, predicting cost trends to optimize cloud spending, or setting up proactive scaling policies based on predicted load.

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Extract data from web pages using the scrapling Python library — select the appropriate fetcher tier (HTTP, stealth Chromium, or full browser automation) based on target site defenses, configure headless browsing, and extract structured data with CSS selectors. Use when WebFetch is insufficient for JS-rendered pages, anti-bot-protected sites, or structured multi-element extraction requiring DOM traversal.

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Classify gate call variants in a minified JavaScript bundle. Covers context-window extraction around a flag occurrence, identification of 4–6 reader variants (sync boolean, sync config-object, bootstrap-aware TTL, truthy-only, async bootstrap, async bridge), default-value extraction (boolean / null / numeric / config-object literal), conjunction detection across `&&` predicates, kill-switch inversion detection, and production of a gate-mechanics record that feeds probe- feature-flag-state. Use when a flag's behavior cannot be inferred from its name alone, when the binary uses multiple reader libraries, or when config-object gates carry structured schemas distinct from boolean gates.

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Statically enforce a privacy/redaction boundary on an artifact tree before publication, the way an AST checker enforces a code contract. Builds a two-tier gate — a shape-based deny-list (regex over identifier shapes) plus a structure-aware tier that parses JSON/HTML/SVG/Markdown/code and asserts sensitive content cannot appear in meaningful positions — with a strict exit-code contract, label-only output that never echoes the patterns themselves, and false-positive narrowing instead of suppressions. Use when gating a public mirror, a disclosure draft, a wire-capture export, or any artifact that must pass a leak check before it ships, and when a plain line-grep is too coarse to trust.

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Implement AI-powered anomaly detection for operational metrics using time series analysis (Isolation Forest, Prophet, LSTM), alert correlation, and root cause analysis. Reduce alert fatigue by intelligently identifying true anomalies in system metrics, logs, and traces. Use when operations teams are overwhelmed by alert volume, when detecting complex multi-metric anomalies beyond static thresholds, when seasonal patterns make thresholds ineffective, or when needing to predict issues proactively before they impact users.

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Unify metrics, logs, and traces for cohesive debugging. Implement exemplars for log-to-trace linking, build unified dashboards using RED/USE methods, and enable rapid root cause analysis across observability signals. Use when investigating complex incidents spanning multiple systems, reducing mean time to resolution, implementing distributed tracing, or moving from siloed tools to a unified observability platform.

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Four-stage alchemical code transmutation — nigredo (decomposition), albedo (purification), citrinitas (illumination), rubedo (synthesis) — with meditate and heal checkpoints between stages. Transforms tangled or legacy code into optimized, well-structured output through systematic material analysis. Use when transforming legacy code into modern equivalents, refactoring deeply tangled modules where incremental fixes keep failing, converting a codebase between paradigms, or when simpler refactoring approaches have stalled and a full-cycle transformation is needed.

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Creation and genesis — generative ideation from void, structured emergence from ambiguity, and the discipline of bringing new patterns into existence. Maps Brahma's creative power to AI reasoning: transforming cleared space into coherent new structures, seeding possibilities, and nurturing nascent ideas through their fragile early stages. Use after shiva-bhaga dissolution has cleared stale patterns, when facing a genuinely novel problem with no obvious template, or when incremental modification has reached its limits and a fresh design is needed.

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State management decision tree for Vue 3 SPAs: ref/reactive locally, composables for shared logic, Pinia for app-wide state, provide/inject for DI, TanStack Query Vue for server state. Vuex pointer for Vue 2 legacy. Use this skill to: - Pick the right state tool for the data shape (local / shared / server / form). - Implement a Pinia store (Setup syntax preferred). - Use provide/inject correctly with InjectionKey<T>. - Set up TanStack Query Vue for server state. - Migrate from Vuex (with caution; only if BA asks). Do NOT use this skill for: - General SFC conventions (see vue-conventions). - Form state (see vue-forms — vee-validate handles that). - Routing state (see vue-routing — use vue-router useRoute). - Testing stores (see vue-testing).

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ASP.NET Core web framework conventions: Minimal API vs MVC controllers, Program.cs composition, DI lifetimes (Scoped/Singleton/Transient), Options pattern with IOptions<T>, middleware ordering (HTTPS redirect → routing → authentication → authorization), model binding and validation (FluentValidation / DataAnnotations), ProblemDetails error handling, structured logging with ILogger<T>, configuration layering (appsettings.json + environment variables + User Secrets), and health checks. Works alongside csharp-foundation:csharp-conventions and aspnet-core-plugin:efcore-patterns. Use this skill to: - Compose Program.cs correctly — register services, configure middleware in the right order, map endpoints. - Apply the Options pattern to avoid passing raw IConfiguration into services. - Write Minimal API endpoint groups with typed results and authorization. - Handle cross-cutting errors uniformly with ProblemDetails. - Configure structured logging and health checks for production readiness. Do NOT use this skill for: - EF Core entity configuration and migrations — see aspnet-core-plugin:efcore-patterns. - C# language idioms — see csharp-foundation:csharp-conventions. - Testing — see csharp-foundation:dotnet-testing.

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Use when explaining branch predictors, mispredict penalties, speculative execution, Spectre or Meltdown mitigations, or branchless code. Not for pipeline stage theory: use cpu-pipelines-and-hazards.

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Use when a measured cost surface needs one-change-at-a-time reduction under frozen guardrails. Not for speed-only optimization: use optimize.

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Use when asked to optimize code, make a path faster, make this as fast as possible, reduce allocations, repair a regression, profile a target, grill every inefficiency, or run a subsystem or repo-wide performance campaign against a measured floor; when a performance requirement, slowness report, Core Web Vitals miss, or profiling evidence identifies a bottleneck; or for an "extremely optimize" performance campaign, optimizing suspected hot paths without waiting for benchmarks, or estimating hot and complexity-neutral cold paths while refusing complexity theater. Not for remote, credential, publish, deploy, or irreversible changes.

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Find App Store Connect API credentials (key ID, issuer ID, .p8 file) on the user's machine and signed-in browser session, then log in with asc CLI. Use when asc auth is needed, credentials are unknown, user says "login to App Store Connect" or "find my ASC key", or before ns-ios-deploy-app.

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