「strain」の検索結果

Audit a repo's agent context — CLAUDE.md files, codebase docs, skills, and tool/MCP designs — against Anthropic's Claude 5 context-engineering guidance ("unhobbling": Anthropic cut ~80% of Claude Code's system prompt with no eval loss). Finds overconstraint, conflicting instructions, redundancy, stale facts, and missing "unknown knowns"; produces a scored findings report with concrete rewrites, then applies approved fixes. Use when someone says "audit my CLAUDE.md", "context audit", "unhobble this repo", "review our agent docs/skills/tools", or after upgrading to Claude 5-generation models.

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。

Use when preparing AISTATS supplementary material, appendices, proof details, code/data archives, simulation scripts, additional tables, and anonymized artifacts under deadline, size, anonymity, and reviewer-discretion constraints, including how to split a theory-plus-experiments paper between body and supplement.

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。

Use when preparing ACM CCS appendices and supplementary material, including the ethics considerations appendix, protocol transcripts, formal proofs, measurement tables, and anonymized supporting material under the 12-page body limit, anonymity, and reviewer-discretion constraints for a security paper.

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。

Use when the mechanism analysis for a 《会计研究》 (Accounting Research) manuscript is missing or mis-specified — the channel must be an information mechanism (reduce information asymmetry, raise disclosure quality, constrain earnings management, improve audit assurance), not a generic pricing or financing channel. Use after the main result holds.

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。

Use when drafting an ACM CCS rebuttal during the HotCRP author-response window, covering threat-model defenses, adaptive-attack objections, ethics and disclosure questions, anonymity constraints, adversarial reviewer pushback patterns, and decision-focused replies aimed at the meta-reviewer.

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。

Use when positioning an AAAI paper's novelty against archival work, contemporaneous arXiv or workshop papers, and AAAI/IJCAI/NeurIPS/ICML/ICLR neighbors across the broad AI scope, while staying inside AAAI's dual-submission and AI-as-source policy constraints and writing a related-work section legible to non-specialist reviewers.

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。

Use when drafting an AAMAS rebuttal to preliminary OpenReview reviews, covering the double-blind constraint, the no-new-results and no-revised-paper norms, how to answer game-theory, MARL, and systems reviewers at once, and how to give the area chair a clean acceptance rationale within a short response window.

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。

Manages Fabric Spark work, including notebook cell code with %%configure, %%sql, PySpark and notebookutils, named notebook runs, Livy sessions, triage of failed or OOM notebook and pipeline Spark runs, and the Materialized Lake View (MLV) lifecycle. Load it before writing MLV SQL, since CREATE MATERIALIZED LAKE VIEW and its CONSTRAINT clause are Fabric-only. KQL materialized views belong to eventhouse-cli.

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。

For founders who don't know where to start with paid ads. Analyzes ICP, competitor ad presence, budget constraints, and product type to recommend which 1-2 paid channels to start with and provides a 90-day ramp plan. Prevents the common mistake of spreading a small budget across too many platforms.

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。

Configure Simulink models for Embedded Coder (ERT), Simulink Coder (GRT rapid-prototyping), or AUTOSAR code generation. Use when the user asks to generate embedded C or C++ code, run a full build of a model, produce a code generation report, configure a model for production/ECU deployment or rapid-prototyping code, target ARM or x86 hardware, apply MISRA C/C++ compliance (ERT/AUTOSAR only — Simulink Coder does not ship MISRA profiles), or set up GRT, ERT, AUTOSAR, or shared-library targets. Handles target selection, hardware mapping, model hierarchy propagation, and constraint introspection via the configure_for_codegen function. Do NOT use for GRT shared-library variants (grt_malloc.tlc), DDS, or ROS, or for iterative optimization workflows that measure baseline metrics, apply targeted changes, and re-measure to confirm improvement.

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。

Author or upgrade Model Advisor checks for Simulink and System Composer models. Covers the full lifecycle: guideline authoring, check specification, Model Advisor check implementation, and qualification testing. Use when creating new checks (edit-time, standard batch, config-parameter, auto-fix), converting legacy StyleOne/StyleTwo/StyleThree checks to modern DetailStyle, creating a guideline for modeling, enforcing a modeling rule, or testing/qualifying a check. Triggers on any modeling constraint (e.g., "blocks shall...", "signals must match...", "parameters shall be set to...").

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。

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.

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。

Designs genomics experiments so technical nuisance variation (batch, lane, plate, flow cell, operator, reagent lot, processing day) is balanced against the biological variable of interest and therefore estimable rather than confounded, using constrained sample-to-batch assignment (designit, OSAT), the confounder/mediator/collider distinction, and the principle that no post-hoc correction recovers a fully confounded design. Covers detecting hidden batches with surrogate variable analysis, a decision table for downstream correction (ComBat-seq, RUVSeq, SVA) whose execution is deferred to differential-expression/batch-correction, and reproducibility metadata. Use when assigning samples to sequencing batches/lanes/plates, avoiding batch-condition confounding, deciding whether a design is salvageable by correction, choosing a correction method, or estimating the number of hidden batches. For the experimental unit, randomization, and blocking concepts see experimental-design/randomization-blocking.

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。

Estimates time-scaled phylogenies, molecular-clock rates, effective reproduction number R_e, and population dynamics from dated pathogen genomes using TreeTime (maximum-likelihood) and BEAST2 (Bayesian; strict/relaxed clocks; coalescent, Bayesian-Skyline, Skygrid, Birth-Death-Skyline, and sampled-ancestor priors; structured coalescent via MASCOT). Covers root-to-tip clock QC via TempEst, date-randomisation tests, recombination masking via Gubbins/ClonalFrameML before clock inference for recombining bacteria, BDSKY origin-vs-rootHeight pitfalls, sampling-bias correction, multi-chain convergence diagnostics, and reconciling phylodynamic R_e with case-based R_t. Use when dating outbreak origins, estimating substitution rates, inferring R_e through time, building time-calibrated Nextstrain Augur trees, choosing between strict and relaxed clocks, fitting Birth-Death-Skyline models, diagnosing temporal-signal failure, running MASCOT for structured-population analyses, or using UShER for pandemic-scale placement.

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。

Detects and removes contamination in genome assemblies via two disjoint workflows - foreign-sequence screening of a single-organism (eukaryote/isolate) assembly with NCBI FCS-GX (GenBank-submission-mandatory), FCS-adaptor, and BlobToolKit blob plots; and MAG/bin quality assessment with CheckM2 plus GUNC (chimerism) plus GTDB-Tk taxonomy, judged against MIMAG. Covers why CheckM2 alone is blind to disjoint-marker chimeras, the FCS-GX RAM wall, organelle/NUMT triage, strain heterogeneity, and the HGT-vs-contamination (tardigrade) trap. Use when screening an assembly for foreign contamination before GenBank submission, assessing MAG completeness/contamination/chimerism, deciding which contigs to remove, or distinguishing real HGT from contaminant contigs.

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。

Detects m6A modifications from Oxford Nanopore direct-RNA-seq (DRS) signal using m6Anet (multiple-instance-learning over DRACH 5-mer signal). Covers the upstream pipeline (Dorado/Guppy basecalling -> minimap2 map-ont -> nanopolish eventalign -> m6anet dataprep -> m6anet inference), per-site vs per-read probability including the mod_ratio stoichiometry column, the DRACH-only constraint, minimum-coverage thresholds (20-50 reads/site), multi-condition comparison via xPore/Nanocompore/ELIGOS, Dorado native modification calling (RNA004, 2024+), and the cDNA-vs-DRS distinction (cDNA Nanopore CANNOT detect modifications). Use when calling m6A from ONT DRS without immunoprecipitation, choosing m6Anet vs xPore vs Nanocompore vs ELIGOS vs Dorado native, interpreting probability_modified vs mod_ratio vs per-read probabilities, deciding between m6Anet (known DRACH sites) and Dorado/Remora (genome-wide screening), pinning RNA002 vs RNA004 chemistry and basecaller versions, or troubleshooting eventalign/dataprep failures.

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。

Build publication-quality figures with matplotlib using the object-oriented Figure/Axes API, constrained_layout, rcParams customization, TrueType (Type-42) font embedding for journal submission, and CVD-safe palettes. Covers seaborn integration, common chart types, axis formatting, and the small gotchas that distinguish reproducible matplotlib from notebook scratch. Use when producing publication figures in Python — RNA-seq scatter, single-cell embeddings, generic biological plotting.

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。

Analyzes species-environment relationships with constrained ordination (CCA, RDA, db-RDA), variance partitioning, indicator species (indicspecies IndVal.g group-equalized), PERMANOVA paired MANDATORILY with PERMDISP (Anderson & Walsh 2013; dispersion confounds centroid tests), Joint Species Distribution Models (HMSC, sjSDM, gjam) with explicit rejection of "residual covariance equals biotic interaction", phylogenetic community ecology (SES_MPD/MNTD), trait-environment via RLQ + fourth-corner with corrected modeltype=6 (Dray 2014), bipartite network metrics (NODF, modularity) with curveball null (Strona 2014), and Mantel-test replacements (dbRDA, GDM) for spatial data. Use when testing how environmental gradients structure communities, identifying habitat indicator taxa, partitioning variance among predictors, deciding whether PERMANOVA significance is location vs dispersion, picking among HMSC/sjSDM/gjam, or replacing Mantel tests for landscape data.

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。

Query protein-protein and gene interaction databases (STRING, BioGRID, IntAct, SIGNOR, Reactome, HuRI, HuMAP, OmniPath, ConsensusPathDB, DIP). Use when building PPI networks, choosing between physical vs functional vs genetic interactions, signed/directed vs undirected, high-throughput vs curated, picking confidence thresholds, aggregating across resources, or navigating license constraints. Encodes the database decision matrix, STRING v12 channel semantics, OmniPath as meta-database, SIGNOR for signed signaling, and per-resource rate limits.

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。

Map N6-methyladenosine (m6A) RNA modifications at single-nucleotide resolution using miCLIP (Linder 2015), miCLIP2 + m6Aboost machine learning (Kortel 2021), GLORI (Liu 2023, antibody-free chemical conversion), DART-seq (Meyer 2019, APOBEC1-YTH fusion), m6Anet (nanopore direct RNA), or MeRIP-seq with calibration. Use when distinguishing antibody-based from antibody-free m6A detection methods, applying the DRACH motif constraint, reconciling cross-method disagreements (DART 44% in DRACH vs GLORI), or detecting m6Am at the cap.

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。

Validates docked / generated protein-ligand poses using PoseBusters physical-validity tests, strain energy quantification, geometric checks (planarity, vdW overlap, bond/angle distortion), and pose-energy reasonableness. Use when QC-ing docking results, comparing classical vs ML docking outputs, or filtering pose lists before SAR analysis.

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。

Build iOS App Clips with invocation URLs, App Clip Codes, NFC, QR codes, Safari banners, Maps, Messages, target setup, App Store Connect experiences, size/capability constraints, NSUserActivity routing, SKOverlay promotion, App Group/keychain handoff, ephemeral notifications, location confirmation, and full-app migration. Use when creating App Clips or wiring App Clip invocation, experience configuration, or full-app handoff.

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。

Prevents crashes due to problematic scope-related API misuse caused by agent escalation into internal scope framework objects. Use when configuring properties of scope-related Simulink blocks or MATLAB objects — constrains the agent to documented APIs and directs users to the scope UI when a property is not programmatically accessible.

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。

Use when writing, solving, or debugging MATLAB optimization code — formulating problems (optimproblem, optimvar, fcn2optimexpr), selecting and configuring solvers (fmincon, linprog, quadprog, intlinprog, lsqnonlin, ga, surrogateopt, optimoptions), or validating results (exitflag, convergence, constraint violations). Covers problem-based and solver-based approaches, solver tuning, and solution verification.

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。