「sam」の検索結果

Queries public GenSpectrum LAPIS data for pathogen genomic surveillance, current lineage nomenclature, weekly sequence proportions, reporting delays, and descriptive mutation frequencies. Use for variant surveillance, Pango lineage validation, dominant submitted lineages, Nextclade assignment provenance, SARS-CoV-2, influenza/H5N1 clades, RSV, mpox, measles, dengue, or LAPIS queries. Distinguishes sequence prevalence from infection prevalence, clades from genotypes, missing calls from reference matches, and sampling changes from biological growth advantage.

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Processes paired-end 16S amplicon reads into QIIME 2 ASVs and taxonomy with retained artifact provenance. Checks paired FASTQ manifests, primer orientation diagnostics, predicted post-trimming overlap, sample IDs, runtime versions and read retention, and guides selection of compatible taxonomic classifiers.

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Performs pathway and gene-set enrichment analysis on gene lists or ranked gene data and interprets the results. Used when the user has a set of genes (differentially expressed genes from PyDESeq2/Scanpy, CRISPR-screen hits, cluster marker genes, proteomics hits) and wants to know which biological pathways, GO terms, or gene sets are over-represented or enriched. Covers over-representation analysis (ORA / Enrichr / Fisher / hypergeometric), ranked Gene Set Enrichment Analysis (GSEA / preranked), single-sample scoring (ssGSEA/GSVA), and functional profiling via gseapy, g:Profiler, Enrichr libraries, MSigDB, GO, KEGG, Reactome, and WikiPathways — plus gene-ID mapping, choosing the right background universe, multiple-testing correction, redundancy reduction, dotplots/enrichment maps, and publication-ready tables. Use this for "pathway analysis", "enrichment analysis", "GO enrichment", "KEGG/Reactome pathways", "GSEA", "over-representation", "functional annotation", or "what pathways are my genes in".

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Resolves free-text scientific labels to ontology term IDs and validates existing CURIEs against the EBI Ontology Lookup Service (OLS4). Also looks up prefixes in Bioregistry, resolves compact identifiers via Identifiers.org, maps lab shorthand with ZOOMA, and builds Ontobee term pages. Use whenever an ontology identifier must be produced or checked - annotating tissue, cell type, disease, phenotype, assay, chemical, organism, sex, or developmental stage fields; preparing metadata for GEO, ENA, BioSamples, CELLxGENE, HCA, or ISA-Tab submission; auditing a metadata table of term IDs; checking whether a term is obsolete and what replaced it; or deciding HPO vs HP. Triggers include "ontology term", "ontology ID", "CURIE", "controlled vocabulary", "UBERON", "CL:", "MONDO", "HPO", "EFO", "ChEBI", "NCBITaxon", "GO term", "PATO", "Zooma", "Bioregistry", "Identifiers.org", "Ontobee", "annotate this tissue/cell type/disease", and any request to emit or verify an identifier shaped like PREFIX:0001234.

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Prepares and launches nf-core/pacsomatic matched tumor-normal PacBio HiFi genomics workflows from unaligned BAM inputs. Supports samplesheet generation, pinned Nextflow launch artifacts, local checks, LSF/Slurm/PBS Pro/SGE launcher submission, and startup troubleshooting. Use for pacsomatic run preparation and execution, not general short-read somatic analysis or medical imaging PACS.

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Builds, runs, and debugs Nextflow DSL2 pipelines and nf-core workflows. Use for Nextflow, nf-core, .nf files, nextflow.config, processes/channels/operators, samplesheets, nf-test, modules/subworkflows, container and executor configuration, HPC/SLURM or cloud deployment, and failed or resumed pipeline runs.

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Builds evidence-traceable market research reports and assumption-driven market sizing or forecast scenarios. Use for market definition, industry and customer evidence, competitive landscapes, TAM/SAM/SOM reconciliation, forecast sensitivity, and auditable report scaffolds.

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Applies the DHDNA framework as an exploratory rubric for reasoning and writing patterns in supplied text. Used for explicit requests for DHDNA, cognitive-style reflection, a thinking-pattern profile, or comparisons of textual reasoning. Scores describe evidence in the sample, not validated psychological traits or personal identity.

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Plans, executes, and documents validation, verification, and transfer of analytical procedures under the governing framework - ICH Q2(R2) and Q14, USP <1220>/<1225>/<1226>, ICH M10 bioanalytical, CLSI EP, or ISO/IEC 17025. Use for HPLC, LC-MS/MS, GC, CE, ICP-MS, dissolution, qNMR, qPCR, NIR, and ligand binding or cell-based assays whenever the question is whether a procedure is fit for its intended purpose. Triggers include "method validation", "analytical method validation", "AMV", "validation protocol", "acceptance criteria", "linearity", "reportable range", "accuracy and precision", "repeatability", "intermediate precision", "recovery", "LOD", "LOQ", "detection limit", "quantitation limit", "specificity", "robustness", "method transfer", "method comparison", "Deming", "Passing-Bablok", "Bland-Altman", "equivalence testing", "OOS investigation", "ICH Q2", "Q2(R2)", "Q14", "USP 1225", "ICH M10", "incurred sample reanalysis", "ISR", "CLSI EP", and any request to show that an assay works.

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Performs constraint-based metabolic modeling with COBRApy, including FBA, pFBA, FVA, gene knockouts, flux sampling, growth media, production envelopes, gap filling, and SBML model validation for systems biology and metabolic engineering.

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Cuts the next release of Prisma 8: bumps the root package.json version (on the v8 RC line: 8.0.0-rc.N → rc.N+1), propagates it to every workspace package, and opens a PR titled "chore(release): bump to <next-version>". When the maintainer merges the PR, the `Publish to npm` workflow runs automatically and ships the new version to npm under the dist-tag its shape implies (`latest`; RC releases get a pre-release GitHub Release), plus a matching GitHub Release. Also prepares the matching prisma/web docs-site PR from the same release notes, to merge once the release is published. Use when a maintainer asks to "cut the next RC", "cut the next release", "bump to the next version", "open a release PR", or "prepare a publish PR".

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Specialized skill for building production-ready serverless applications on AWS. Covers Lambda functions, API Gateway, DynamoDB, SQS/SNS event-driven patterns, SAM/CDK deployment, and cold start optimization.

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Senior embedded software engineer specializing in firmware and driver development for ARM Cortex-M microcontrollers (Teensy, STM32, nRF52, SAMD).

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Convert human-written CLAUDE.md into AI-native structured-label format. Battle-tested across 4 models. Same rules, fewer tokens, higher compliance.

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Use when designing an A/B or split test: define the hypothesis, control and variants, estimate sample size, verify tracking, and predeclare metrics and stopping rules.

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Reverse-engineer a website's internal API by recording browser traffic into a HAR file, then generate a standalone client or CLI that calls the endpoints directly, with no browser needed after the first recording. Use when asked to "derive a client", "build a CLI for <site>", "reverse engineer this site's API", "record network requests", "turn this site into an API", or when the same site will be automated repeatedly and direct HTTP calls would beat driving the browser every time.

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Internal downstream skill for ctf-sandbox-orchestrator. CTF-sandbox workflow for reverse engineering, malware, DFIR, firmware, pwnable, and native exploit challenges. Use when the user asks to reverse a binary, unpack a sample, inspect a memory dump or PCAP, recover malware behavior, debug a crash, or build or verify an exploit chain under sandbox assumptions. Use only after `$ctf-sandbox-orchestrator` has already established sandbox assumptions and routed here.

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Use for authorized assessment of federated identity systems including SAML, OIDC, OAuth2 flows, SSO misconfiguration, and token confusion issues.

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实战 SRC / 众测 / Bug bounty 漏洞挖掘工作流 skill。包含：5 阶段方法论（intake → recon → enum → hunt → report）、19 个攻击类 playbook（SQLi/XSS/RCE/SSRF/IDOR/CSRF/Path Traversal/File Upload/SSTI/XXE/Race/HTTP Smuggling/OAuth/JWT/SAML/GraphQL/Mobile/LLM/DoS）、305 个结构化 payload、263 个 WAF/EDR 绕过变体、2887 份 HackerOne 真实 High/Critical 已披露案例、77,000+ WooYun 案例统计、国产 OA / 中间件指纹库、银行 / 电信行业垂直 playbook。当用户提到 "src 挖洞 / src 漏洞挖掘 / bug bounty / 众测 / hackerone / 漏洞赏金 / SRC / 任意 X 漏洞 / 渗透测试" 或问"如何挖某个目标 / 怎么测某个 API / 如何绕过 WAF" 时触发。

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Calculate TAM/SAM/SOM for market opportunities using top-down, bottom-up, and value theory methodologies. Use this skill when sizing markets, estimating addressable revenue, validating market opportunity for a new venture, or building investor-ready market analysis for a startup pitch or business plan.

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Convert evaluation traces and production logs into SFT examples and preference pairs. Use when graded traces or failure examples exist and need to become training data, when applying rejection sampling to model outputs, or when building DPO pairs from passing and failing runs.

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Coordinate parallel feature development with file ownership strategies, conflict avoidance rules, and integration patterns for multi-agent implementation. Use this skill when decomposing a large feature into independent work streams, when two or more agents need to implement different layers of the same system simultaneously, when establishing file ownership to prevent merge conflicts in a shared codebase, when designing interface contracts so parallel implementers can build against each other's APIs before they are ready, or when deciding whether to use vertical slices versus horizontal layers for a full-stack feature.

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Look up Microsoft API references, find working code samples, and verify SDK code is correct. Use when working with Azure SDKs, .NET libraries, or Microsoft APIs—to find the right method, check parameters, get working examples, or troubleshoot errors. Catches hallucinated methods, wrong signatures, and deprecated patterns by querying official docs.

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Build Model Context Protocol (MCP) servers in C#/.NET against the current ModelContextProtocol 2.x NuGet packages. Helps with cases the model gets wrong without guidance — stale versions (0.x preview or 1.x-era defaults), the v2 stateless-by-default HTTP flip, the 2026-07-28 spec deprecations (roots/sampling/logging), MCP Apps and Tasks extension packages, elicitation URL mode, per-session HTTP wiring, OAuth and reverse-proxy deploy specifics, and debugging MapMcp / STDIO / Streamable-HTTP errors. Also covers STDIO and Streamable HTTP transports (SSE is deprecated), tools, prompts, resources, completions, and a basic .NET MCP client. Trigger when the user says or implies any .NET MCP server work: ModelContextProtocol, McpServerTool, MapMcp, WithStdioServerTransport, "MCP server in C#", "MCP tool in dotnet", "expose this as MCP", or names a primitive (prompt/resource/elicitation/MCP App) in a .NET context. Skip for MCP work in other languages.

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