Classes and statistical methods for large SNP association studies. This extends the earlier snpMatrix package, allowing for uncertainty in genotypes.
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Classes and statistical methods for large SNP association studies. This extends the earlier snpMatrix package, allowing for uncertainty in genotypes.
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This package aims to integrate GWAS-derived SNPs and coexpression networks to mine candidate genes associated with a particular phenotype. For that, users must define a set of guide genes, which are known genes involved in the studied phenotype. Additionally, the mined candidates can be given a score that favor candidates that are hubs and/or transcription factors. The scores can then be used to rank and select the top n most promising genes for downstream experiments.
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This package contain functions to run genomic instability analysis (GIA) from scRNA-Seq data. GIA estimates the association between gene expression and genomic location of the coding genes. It uses the aREA algorithm to quantify the enrichment of sets of contiguous genes (loci-blocks) on the gene expression profiles and estimates the Genomic Instability Score (GIS) for each analyzed cell.
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Manhattan plot and QQ Plot are commonly used to visualize the end result of Genome Wide Association Study. The "ggmanh" package aims to keep the generation of these plots simple while maintaining customizability. Main functions include manhattan_plot, qqunif, and thinPoints.
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lisaClust provides a series of functions to identify and visualise regions of tissue where spatial associations between cell-types is similar. This package can be used to provide a high-level summary of cell-type colocalization in multiplexed imaging data that has been segmented at a single-cell resolution.
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This package provides a client for the Bioconductor ExperimentHub web resource. ExperimentHub provides a central location where curated data from experiments, publications or training courses can be accessed. Each resource has associated me
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Complex heatmaps are efficient to visualize associations between different sources of data sets and reveal potential patterns. Here the ComplexHeatmap package provides a highly flexible way to arrange multiple heatmaps and supports various
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epigraHMM provides a set of tools for the analysis of epigenomic data based on hidden Markov Models. It contains two separate peak callers, one for consensus peaks from biological or technical replicates, and one for differential peaks from multi-replicate multi-condition experiments. In differential peak calling, epigraHMM provides window-specific posterior probabilities associated with every possible combinatorial pattern of read enrichment across conditions.
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Expert knowledge for SAP HANA on Azure Large Instances development including troubleshooting, best practices, decision making, architecture & design patterns, limits & quotas, security, configuration, integrations & coding patterns, and deployment. Use when deploying HANA LIs, Azure Monitor for SAP, HA/DR clusters, Terraform/SDAF automation, or Entra ID SSO, and other SAP HANA on Azure Large Instances related development tasks. Not for Azure Large Instances (use azure-large-instances), Azure Virtual Machines (use azure-virtual-machines), SQL Server on Azure Virtual Machines (use azure-sql-virtual-machines).
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Expert knowledge for Azure Virtual Desktop development including troubleshooting, best practices, decision making, architecture & design patterns, limits & quotas, security, configuration, integrations & coding patterns, and deployment. Use when configuring host pools/FSLogix, autoscale, MSIX App Attach, Teams optimization, or AVD security/SSO, and other Azure Virtual Desktop related development tasks. Not for Azure Virtual Machines (use azure-virtual-machines), Azure Dev Box (use azure-dev-box).
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Expert knowledge for Azure Dev Box development including troubleshooting, best practices, decision making, limits & quotas, security, configuration, integrations & coding patterns, and deployment. Use when designing Dev Box images, configuring pools/catalogs, securing access (RBAC/SSO), managing quotas, or fixing connectivity, and other Azure Dev Box related development tasks. Not for Azure DevTest Labs (use azure-devtest-labs), Azure Virtual Machines (use azure-virtual-machines), Azure Virtual Desktop (use azure-virtual-desktop).
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Turn a completed task, browser flow, artifact pipeline, failure-recovery trace, or repeatedly refined workflow into a new reusable skill package or a reviewed skill-design plan. Use when the user asks to make a new skill from real run history, extract a reusable workflow from conversation/logs/files, summarize lessons into a new skill, or produce a plan before writing files. Do not use to upgrade an existing skill or to execute the business workflow itself.
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Mandatory pre-flight-search reference. Contains the Seats.aero workflow (pull ALL programs first), source accuracy hierarchy, Southwest/Companion Pass specifics, small-market caveats, and Duffel limitations.
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One-shot efficiency audit of a file, diff, or whole repo across BOTH axes at once: over-engineered code (reinvented stdlib, needless abstractions, speculative config) AND bloated prose (verbose comments, padded docstrings, redundant doc sections). Neither a pure code-minimizer nor a pure prose compressor does both in one pass. That's the point. Ranked report, biggest saving first; changes nothing. Use when the user says "chisle audit", "/chisle-audit", "audit this for bloat", "what can I cut", "review this PR for over-engineering and verbosity".
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Monitoring, observability, operational procedures, CI/CD lessons learned, and quality gate definitions. Load when assessing production readiness or validating operational excellence.
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Single Source of Truth detection — where truth lives in an nWave repo and how to avoid contradicting it.
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Dung khi mot CA NHAN can viet BAI DAI de xay uy tin, khong phai copy ban hang — 3 cau truc chuan cho thi truong VN gom PAS-Insight cho founder, Story-Lesson-CTA cho coach, Hook-List-Reveal cho creator; 6 cong thuc hook long-form; ky thuat nhip cau; do dai theo nen tang LinkedIn, Facebook, newsletter; ma tran tai su dung 1:5. Kich hoat khi user nhac 'viet bai LinkedIn', 'thought leadership', 'long form post', 'newsletter ca nhan', 'viet bai chuyen sau', 'khong biet viet gi tren trang ca nhan', 'muon duoc coi la chuyen gia'. Khong dung cho — copy quang cao tra tien thi dung skill 05-copy-quang-cao; caption ngan cho fanpage doanh nghiep thi dung skill 37-caption-social; kich ban video ngan thi dung skill 04-script-video.
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Use when a PERSONAL brand needs long-form WRITTEN content that builds authority rather than sells — LinkedIn posts, X threads, Substack and Medium essays, using PAS-Insight for founders, Story-Lesson-CTA for coaches, and Hook-List-Reveal for creators, with six hook formulas and a 1-to-5 repurpose. Trigger on 'LinkedIn post', 'thought leadership', 'write a Twitter thread', 'newsletter essay', 'Substack post', 'I want to be known for this topic'. Also use when the user has an opinion and wants it turned into a post. Not for — company brand captions, see `37-social-caption-global`; paid ad copy, see `05-ad-copy-global`; short video scripts, see `04-script-video-global`.
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Use when a campaign has ENDED and the team needs a structured retrospective — a scorecard against target, what worked, what did not, and why with evidence, surprises, process review, lessons written back into the playbook and Brand Hub, and action items with owners. Trigger on 'campaign retrospective', 'campaign retro', 'post-mortem', 'campaign debrief', 'what worked and what did not', 'the campaign is over, what did we learn'. Also use when a campaign underdelivered and the team is arguing about why. Not for — a periodic performance report, see `07-marketing-report-global`; diagnosing live numbers mid-flight, see `03-performance-eval-global`; the next period ads plan, see `57-next-ads-plan-global`.
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指导如何通过自定义注解(如@Unicom)标识Dubbo接口,利用BeanDefinitionRegistryPostProcessor在启动时扫描并动态注册ReferenceBean,实现RPC调用的封装。
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用于编写VBA宏,批量处理Excel中的超链接。支持将绝对路径转换为相对路径以解决共享问题,或根据文件夹名称批量创建指向本地文件夹的超链接,并自动校验文件存在性。
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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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Failure taxonomy and allowed/forbidden repairs for a failing E2E test. Use when a Playwright/Maestro/Detox/XCUITest/Espresso/Appium test fails and you must decide whether to repair the test or route to a real bug.
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Implement BullMQ job workflows in NestJS. Use when building queue processors, redis-throttler, Upstash limits, idle polling, stalled jobs, and retention policies.
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