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概要と使いどころ
Audit whether prior learnings actually fired, then install mechanisms for this run's recurrences. No finding without an install path and a firing test. Triggers: retrospective, reflect, what did we learn, patterns, post-mortem, why does this keep happening.
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Post-mortem on what the user has already posted - which reels actually worked, why, and what to stop making. Use when the user pastes their Instagram insights or past posts and asks "what's working", "why did this flop", "read my analytics", "audit my content", or wants to know what to do more of.
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CP-7 retrospective: audit checkpoints, evidence quality, action items, and harvest candidates. Closes the V-model cycle and feeds the next run. Use via /retro after ship, escalate, or significant session.
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Use when the credibility of the causal evaluation of a policy is the bottleneck for an AEJ: Economic Policy manuscript — DID/event study, IV, RDD/bunching, or RCT of a program. Stress-tests the quasi-experimental policy-evaluation design to the AEJ: Policy bar before exhibits are finalized; it does not build the welfare mapping or write exhibits.
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Use when the empirical identification strategy is the bottleneck for a 《会计研究》 (Accounting Research) manuscript — exogenous standard / regulatory changes (event study, DID), PSM, Heckman, IV — and you need to stress-test the design before drafting tables. Prefers standard/regulatory shocks as the cleanest accounting identification source.
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Verify phone numbers using SMS one-time codes via the Didit API. Use when you need to confirm a user owns a phone number, implement SMS-based 2FA, or validate phone during signup/onboarding flows.
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Answer questions about a brand's Meta ads (spend, results, which ad is winning, is it paused, why did Goose do that) only from reads made in the same turn, with the data window and sync time on every number and a plain caveat when the connection is stale or partial. Use it whenever a user asks how their ads are doing or why an ad action was taken.
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Use when SLCI code inspection has failed due to compatibility issues and you need to diagnose the incompatibilities. Traces inspection failures back to root-cause incompatibility settings or known limitations by matching failed code lines against known incorrect code generation patterns and documented limitation scenarios. Hands off to slci-compatibility-analysis for fixes. Trigger keywords: inspect, inspection failed, trace inspection errors, why did inspection fail, SLCI verification failures, limitation.
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Identify tumor neoantigens from somatic variants with pVACtools (pVACseq/pVACfuse/pVACbind/pVACvector/pVACview) for personalized cancer vaccines and checkpoint biomarkers. Encodes the field's hard truth that binding prediction is the easy, near-solved part and single-digit-percent PPV lives downstream — so it centers clonality/CCF, HLA LOH (the silent invalidator), expression, proximal-variant phasing, agretopicity/foreignness quality, and the predicted->presented->immunogenic validation tiers. Use when nominating vaccine targets, ranking neoantigens, or building a tumor-to-candidate pipeline. Binding details in mhc-binding-prediction; ranking in immunogenicity-scoring.
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Infer or annotate TCR antigen specificity by unsupervised clustering (TCRdist/tcrdist3, GLIPH2, clusTCR, GIANA) and database lookup (VDJdb, IEDB, McPAS-TCR), and rank candidates with supervised predictors (ERGO-II, NetTCR-2.x, pMTnet) under explicit caveats. Encodes the central truth that general TCR-epitope prediction for UNSEEN epitopes essentially does not work (collapses to near-random; IMMREP22, Grazioli 2022) because labeled data is dominated by a few immunodominant epitopes and there is no true negative set — so clustering for discovery is the honest task and de-novo binding needs wet-lab validation. Use when annotating TCR specificity or grouping a repertoire. Epitope/MHC context lives in mhc-binding-prediction.
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Designs and ranks guide RNAs (sgRNAs) for CRISPR-Cas9/Cas12a gene knockout by scanning a target for PAM sites (NGG SpCas9, NNGRRT SaCas9, TTTV Cas12a, NG SpCas9-NG, near-PAMless SpRY), enumerating candidate spacers, applying hard filters (Pol-III TTTT terminator, 5' G, GC), ranking on-target activity with the context-appropriate model (Rule Set 2/Azimuth for U6/lentiviral, CRISPRscan for T7/embryo, DeepHF for high-fidelity variants, DeepCpf1 for Cas12a), and predicting the indel/frameshift outcome (Bae out-of-frame score, inDelphi, FORECasT, Lindel). Use when selecting sgRNAs to knock out a gene, choosing a nuclease/PAM for a constrained locus, picking which exon to target, or shortlisting guides before an off-target check. Off-target specificity, base/prime editing, and HDR donors are separate skills.
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Analyzes CRISPR drug-modifier (chemogenomic) screens with drugZ (Colic et al. 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 greater sensitivity to small-effect hits than 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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Prioritizes rare-disease variants from trio/quad WES/WGS with de novo (DeNovoGear, Triodenovo), compound-heterozygous phasing (WhatsHap), mosaic VAF tiering, phenotype-driven ranking (Exomiser, Phen2Gene, AMELIE), ClinGen gene-disease validity gating, and ACMG SF v3.2 secondary findings reporting. Use when running diagnostic exome / genome pipelines, identifying candidate Mendelian disease genes, screening for incidental findings, or auditing VUS reclassification cycles. The ACMG/AMP classification framework (PVS1 decision tree, Pejaver PP3/BP4 calibration, Tavtigian point system) is in clinical-databases/acmg-classification.
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Performs structure-based virtual screening using AutoDock Vina, SMINA, GNINA (CNN scoring), and DiffDock-L hybrid workflows with explicit choice rules across rigid vs flexible docking, cross-docking vs self-docking, binding-site detection (P2Rank, fpocket), receptor preparation (PDB2PQR, PROPKA), ligand preparation (meeko, OpenBabel), and ultralarge-library screening (ZINC22, Enamine REAL). Use when screening chemical libraries against a protein target to find candidate binders, ranking docking poses, or selecting a docking workflow for a specific scenario.
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Builds and applies 3D pharmacophore models using RDKit Pharm3D, the apo2ph4 receptor-based workflow (Heider et al. 2023), Pharmer / Pharmit for search, and PharmacoForge for protein-pocket-conditioned pharmacophore generation (Flynn et al. 2025), covering ligand-based pharmacophores from active-set alignment and receptor-based pharmacophores from binding-pocket geometry. Explicitly handles feature types, geometric tolerances, partial matching, and pharmacophore-based virtual screening. Use when identifying scaffold-hopping candidates, building shape-and-feature search queries, or transferring SAR across chemotypes.
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Annotates ChIP-seq peaks to genomic features, nearest genes, ENCODE candidate cis-regulatory elements (cCREs), and regulatory domains. Uses ChIPseeker (R), HOMER annotatePeaks.pl (CLI), pyranges (Python), GREAT/rGREAT (regulatory domain gene-set enrichment), ChIP-Enrich (locus-length-adjusted), ENCODE SCREEN cCRE classification (PLS/pELS/dELS/CA-CTCF/CA-H3K4me3), and ENCODE-rE2G for cell-type-specific enhancer-gene linking. Handles nearest-TSS vs host-gene ambiguity, promoter window definition, and feature priority. Use when assigning genomic context to peaks, linking enhancer peaks to target genes, classifying peaks against ENCODE cCRE registry, or running gene-set enrichment on peak-associated genes.
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Resolves GWAS associations to candidate causal variants and credible sets via SuSiE, susie_rss, FINEMAP, CAVIAR, DAP-G, PAINTOR, PolyFun, SuSiEx, MultiSuSiE, and FOCUS. Use when narrowing a GWAS lead SNP to a 95 percent credible set, choosing between in-sample and reference LD, calibrating non-sparse loci with SuSiE-inf or FINEMAP-inf, integrating functional priors via PolyFun, fine-mapping across ancestries with SuSiEx, diagnosing LD mismatch via estimate_s_rss and kriging_rss, handling HLA or long-range LD, or feeding credible sets into coloc.susie for colocalization.
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Performs gene-level association from GWAS summary statistics via genetically predicted tissue expression using FUSION, PrediXcan, S-PrediXcan, S-MultiXcan, UTMOST, MOSTWAS, kTWAS, EpiXcan, TIGAR-V2, and probabilistic fine-mapping with FOCUS and MA-FOCUS. Use when running TWAS from GWAS sumstats, prioritising candidate causal genes from a GWAS lead locus, picking single-tissue vs cross-tissue models, identifying LD-induced TWAS false positives, choosing ancestry-matched prediction weights, fine-mapping co-regulated TWAS hits, or triangulating TWAS with cis-eQTL Mendelian randomization and colocalization to nominate a causal gene.
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Find out why the tests pass but the app is broken. Catches false greens: a green suite over a feature that does not work, a mocked API standing in for a real one, an assertion that holds no matter what the app does, a click handler wired to nothing. Use when the suite is green and the user says it is broken, when a test never fails, when coverage looks fine but bugs still ship, or before trusting a passing run you did not watch.
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Prove that a command-line tool actually did what it said, instead of trusting its exit code and its output. Snapshots the filesystem before and after, names the expected consequence in advance, and returns one of four verdicts with what could not be seen. Use after running a build, a migration, a scaffolder, a formatter, a codegen step, or an AI coding CLI; when a command printed success and you are about to report "done"; when you are about to write "exit code 0, so it worked"; or when a tool claims it edited files. Needs nothing installed.
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Viking Search tuning for specified policy directions. Use this when the user provides specific queries, a type of query, or a business policy direction, and asks to boost, suppress, or fix a class of search results through request-parameter passthrough. You must only perform read-only baseline evaluation and request-level candidate testing; do not modify search scenes, app config, dictionaries, recommend scenes, or primary recall parameters.
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Drives a multi-turn conversation with a LiveKit agent running locally to see what it does. Use when the user says "test my agent", "try my agent", "does this work", "why did it call that tool", "it says the wrong thing when I ask X", "test this change", or whenever you have edited an agent and need to check how it behaves. Wraps `lk agent debugger`: start the agent in text mode, send turns, read the tool calls, handoffs, errors and logs behind each reply, and restart after an edit. It runs without audio or a LiveKit room at one LLM call per turn, so it is the preferred way for a coding agent to live-test during development, and the default when the user says "test" without naming unit tests or simulations.
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Evaluate ecommerce price candidates using unit economics, historical observations, elasticity analysis, scenario modeling, and controlled experiments. Use when a seller asks what price to test, how price changes could affect contribution or revenue, how to estimate elasticity, how to optimize a bundle or tier, or how to design a price experiment across Amazon, Shopify, TikTok Shop, Walmart, eBay, or other channels. Do not claim a proven optimal price without sufficient clean data, and do not change live prices without explicit authorization.
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Restore a prior business-state snapshot saved by /money-save, so you can continue from exactly where the last session left off. Loads the most recent snapshot for the current project (auto-detected from the working directory), or a specific one by index. Use when starting a new Claude Code conversation and the user wants to continue prior work. Triggered by: 'continue from last time', 'where did we leave off', 'pick up from before', 'resume', '接着上次', '续上', '之前的结论', '上次诊断到哪了'.
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