「cer」の検索結果

End-to-end pooled and single-cell CRISPR screen analysis from FASTQ to hit genes. Orchestrates library design QC, guide counting, six-stage screen QC (plasmid Gini, replicate Pearson, CEGv2 PR-AUC, copy-number artifact), method-appropriate hit calling across MAGeCK RRA/MLE, BAGEL2, drugZ, JACKS, and Chronos, cancer-cell-line copy-number correction (CRISPRcleanR / Chronos), batch correction for multi-batch screens, and the specialized branches for combinatorial paralog screens, single-cell Perturb-seq, base-editor variant-function screens, prime-editor screens, and in vivo bottleneck-aware screens. Use when analyzing any pooled CRISPR screen end-to-end, matching the hit-calling method to the experimental design, integrating copy-number correction into the pipeline, or branching the workflow for single-cell, combinatorial, base-editor, prime-editor, or in vivo variants.

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Cell-free DNA analysis pipeline from plasma sequencing to tumor monitoring. Preprocesses cfDNA reads, analyzes fragment patterns, estimates tumor fraction from sWGS, and optionally detects mutations from targeted panels. Use when analyzing liquid biopsy samples for cancer detection or monitoring.

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Assess drug-drug interactions — CYP metabolic interactions (substrate/inhibitor/inducer), transporter (P-gp, BCRP, OATP) effects, pharmacodynamic synergy/antagonism, clinical significance scoring, and management recommendations. Use for polypharmacy review, prescribing decision support, and safety analysis when adding or switching drugs.

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Builds QSAR / QSPR models using chemprop D-MPNN, MolFormer, Uni-Mol, ChemBERTa, random forest baselines, and Gaussian processes with explicit handling of OECD 5 principles, applicability domain (kNN, leverage, conformal prediction, Mahalanobis), scaffold-balanced splits, ensemble uncertainty, calibration (Platt, isotonic), feature importance (SHAP, atomic attribution), and prospective validation. Use when building target-specific predictive models from in-house bioassay data, ADMET endpoints, or selectivity profiles.

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Predicts ADMET properties using ADMETlab 3.0 (119 endpoints with uncertainty), ADMET-AI, DeepChem MolNet, and chemprop D-MPNN with explicit handling of OECD QSAR principles, applicability domain assessment, calibration, hERG/CYP/AMES gold-standard endpoints, and PAINS / Lipinski / Ro5 / Veber / BBB druglikeness filters. Use when filtering compounds for drug-likeness, prioritizing leads by predicted safety, or building an in-house ADMET QSAR model.

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Plan transition from freelancer to agency with scaling. TRIGGERS - Use when user needs help with agency-builder related tasks.

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Extract organization name, registration number, status, registration date, and officers from a public registry page.

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Use when writing or auditing the conversational copy layer of a Salesforce bot or Agentforce agent: utterance authoring strategy, fallback message copy, escalation-criteria phrasing, and persona-consistent dialog scripting across channels. NOT for platform configuration (bot builder setup, topic metadata wiring, action mapping, or Agentforce deployment) — see architect/einstein-bot-architecture and agentforce/agentforce-persona-design for those concerns.

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Maquina autonoma de seguranca (wrapper SENTINEL). Security + load testing + LGPD compliance. 6 dimensoes, modo hybrid, convergencia SSS >= 80. Security Certificate.

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When the user wants to optimize aerospace and defense supply chains, manage long lead-time components, handle MRO operations, or ensure AS9100 compliance. Also use when the user mentions "aerospace supply chain," "aviation manufacturing," "MRO supply chain," "AS9100," "aircraft parts," "defense procurement," "AOG support," "airworthiness," "ITAR compliance," "aerospace certification," or "aviation aftermarket." For general manufacturing, see production-scheduling. For quality, see quality-management.

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Turn public agenda, news, policy moves, geopolitical developments, sanctions, trade disputes, regulation, elections, diplomatic signals, and strategic-risk events into decision-ready briefs. Use when the user asks an agent to analyze what changed, why it matters, who is affected, what is uncertain, scenarios, watch-next indicators, or risk implications instead of producing a simple news summary.

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Maquina autonoma de seguranca, load testing e LGPD. 6 dimensoes, modo hybrid, convergencia SSS >= 80. Security Certificate + Load Report + Fix PR.

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Scan an AEM Edge Delivery Services page for WCAG 2.1 AA accessibility violations and generate specific fixes. Identifies missing alt text, heading hierarchy issues, link text problems, color contrast concerns, and EDS-specific accessibility patterns. Use when fixing accessibility issues, preparing for compliance audits, or remediating WCAG violations.

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Integrate Red Hat Ansible Automation Platform (AAP) with HashiCorp Vault Enterprise for dynamic SSH credential management. Use when: (1) Configuring Vault SSH secrets engine with AppRole auth for AAP, (2) Creating AAP credentials backed by Vault signed SSH certificates, (3) Provisioning infrastructure with Terraform/Ansible for AAP-Vault integration, (4) Setting up multi-tenant credential management, (5) Configuring golden images to trust Vault SSH CA, (6) Implementing credential rotation strategies. Based on HashiCorp validated pattern.

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Use when you need to add or configure Maven plugins in your pom.xml — including quality tools (enforcer, surefire, failsafe, jacoco, pitest, spotbugs, pmd), security scanning (OWASP), code formatting (Spotless), version management, container image build (Jib), build information tracking, and benchmarking (JMH) — through a consultative, modular step-by-step approach that only adds what you actually need. This should trigger for requests such as Add Maven plugins in pom.xml; Improve Maven plugins in pom.xml. Part of cursor-rules-java project

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Scaffolds a complete .NET solution following Clean Architecture principles with proper layer separation (API, Application, Domain, Infrastructure). Creates project structure, dependency injection setup, and cross-cutting concerns configuration.

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Use when arranging the project quality-check or investigating a concrete unresolved code concern

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Help a user talk through whether to change jobs, stay, or change something in their current work, starting from uncertainty, distress, a vague sense of stagnation, an offer in hand, a counter-offer from the current employer, or pressure from family or colleagues. Clarify what matters, separate deadlines that order the next steps from the decision itself, compare conditional options, and agree on a small next step and a time to revisit it. Use when someone asks whether they should quit, wonders whether leaving is just running away, has second thoughts after receiving an offer or being asked to stay, feels stuck because others say it would be a waste, wants to leave soon after joining, or wants advice before deciding to start a job search; do not make the final stay-or-leave decision, evaluate offer terms, plan the resignation, or predict hiring outcomes.

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Routes memory and retrieval tasks between MemPalace and QMD. Use this skill whenever the user asks WHERE something is in the codebase (route to QMD), WHY something was built a certain way or what was decided (route to MemPalace), or needs BOTH code and historical context (combined). Trigger on phrases like: 'where is X', 'find X in the code', 'search the codebase for X', 'what did we decide about X', 'why does X work this way', 'show me X and why we built it', 'look up X', 'what's in the handoffs about X', 'pull the relevant files for X'. Use proactively whenever a question could benefit from codebase search OR project memory — don't wait for the user to explicitly ask for a search.

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Balances Hi-C contact matrices (ICE via cooler.balance_cooler, KR/SCALE/VC context), computes distance-decay expected with cooltools (expected_cis per-diagonal P(s), expected_trans scalar), builds observed/expected (O/E) matrices, and diagnoses polymer state from the P(s) log-derivative. Covers the within-matrix-vs-cross-sample distinction (balancing is NOT a normalizer), the equal-visibility assumption that CNV/aneuploidy violates (use raw counts for copy-number), cis-only balancing, mad_max/blacklist masking before balancing, multiplicative cooler weights vs divisive juicer weights, and the resolution-vs-depth budget. Use when balancing a .cool/.mcool, computing expected or P(s), making O/E matrices for compartments/loops, deciding ICE vs KR vs SCALE, choosing a resolution for a given depth, or troubleshooting NaN/all-NaN balanced matrices; route cross-sample comparison to hic-differential.

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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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Designs donor/repair templates for precise CRISPR knock-ins -- choosing the format (ssODN, long-ssDNA/Easi-CRISPR, dsDNA/plasmid, AAV6), sizing homology arms, placing the cut within ~10 bp of the edit, and adding a mandatory codon-checked blocking (PAM/seed) mutation so the edited allele is not re-cut. Frames the HDR-vs-NHEJ-vs-MMEJ pathway competition, the MMEJ (PITCh) and homology-independent (HITI/HMEJ) alternatives for post-mitotic cells, ssODN strand/asymmetry choice, phosphorothioate end-protection, and ranked HDR enhancers. Use when designing a donor for a point mutation, epitope/fluorophore tag, allele replacement, or knock-in, or when HDR efficiency is low. Guide design and base/prime editing are separate skills.

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Compares Hi-C contact maps between conditions across the right scale -- differential bin-pair contacts (multiHiCcompare, diffHic), differential A/B compartments (dcHiC), differential TAD boundaries (delta insulation), and differential loops (diffloop, DiffHiChIP) -- with distance-stratified between-sample normalization, replicate-aware NB-GLM FDR, HiCRep SCC reproducibility gating, and CNV correction for cancer/aneuploid samples. Use when comparing Hi-C between treatment and control, finding differential contacts/compartments/boundaries/loops, normalizing two maps of unequal depth, choosing a replicate-aware test, gating replicates with SCC, or correcting copy-number artifacts before a tumor-vs-normal comparison.

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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.

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。