「omics」の検索結果

Test whether two or more traits share a causal variant at a locus using Bayesian colocalization (coloc.abf, coloc.susie, HyPrColoc, moloc, eCAVIAR, SMR/HEIDI, PWCoCo, SharePro). Use when integrating GWAS with eQTL/sQTL/pQTL/mQTL, distinguishing shared causal variants from LD-driven coincidence, handling allelic heterogeneity, choosing between single-causal vs multi-causal methods, picking PP.H4 thresholds, running sensitivity over p12, or harmonising summary statistics for colocalization.

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Installs 425 bioinformatics skills covering sequence analysis, RNA-seq, single-cell, variant calling, metagenomics, structural biology, and 56 more categories. Use when setting up bioinformatics capabilities or when a bioinformatics task requires specialized skills not yet installed.

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Analyzes community composition using constrained ordination (CCA, RDA, db-RDA), variance partitioning (varpart), indicator species analysis (indicspecies multipatt), and distance-based environmental gradient methods with vegan. Links species composition to environmental explanatory variables. Use when testing how environmental gradients structure species communities, identifying habitat indicator taxa, or partitioning explained variation among predictors. Not for basic unconstrained ordination and PERMANOVA (see microbiome/diversity-analysis).

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Detect and track antimicrobial resistance genes using AMRFinderPlus and ResFinder with epidemiological context. Monitor resistance trends and identify emerging resistance patterns. Use when screening genomes for AMR genes or tracking resistance in surveillance programs.

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Statistical testing for differentially abundant proteins between conditions. Covers preprocessing (log2 transformation, normalization), limma and DEqMS workflows with empirical Bayes moderation, fold change shrinkage for accurate effect size estimation, and Python alternatives. Use when identifying proteins with significant abundance changes between experimental groups.

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Selects informative features for biomarker discovery using Boruta all-relevant selection, mRMR minimum redundancy, and LASSO regularization. Use when identifying biomarkers from high-dimensional omics data.

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End-to-end biomarker discovery workflow from expression data to validated biomarker panels. Covers feature selection with Boruta/LASSO, classifier training with nested CV, and SHAP interpretation. Use when building and validating diagnostic or prognostic biomarker signatures from omics data.

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Calculates species richness, diversity, and turnover using the Hill number framework with iNEXT coverage-based rarefaction/extrapolation, asymptotic diversity estimation, and beta diversity partitioning (betapart turnover vs nestedness). Compares assemblages using coverage-standardized rather than size-standardized rarefaction. Use when quantifying biodiversity from species abundance or incidence data, comparing diversity across sites, or constructing rarefaction curves. Not for clinical 16S microbiome alpha/beta diversity (see microbiome/diversity-analysis).

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Analyzes time-to-event data using Kaplan-Meier curves, log-rank tests, and Cox proportional hazards regression with lifelines. Builds survival models from clinical and omics features. Use when predicting patient survival or modeling time-to-event outcomes.

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Detect antimicrobial resistance genes using AMRFinderPlus, ResFinder, and CARD. Screen isolates and metagenomes for resistance determinants. Use when characterizing resistance profiles in clinical isolates, surveillance samples, or metagenomic data.

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Reconstruct ancestral states at internal phylogenetic nodes for sequences (PAML codeml, IQ-TREE --ancestral, GRASP, FastML), discrete traits (corHMM hidden-rate Markov, ape::ace, phytools::make.simmap stochastic mapping, BayesTraits), and continuous traits (phytools::fastAnc, geiger Brownian/OU, RPANDA). Use when designing constructs for ancestral protein resurrection, tracing trait evolution along a tree, performing stochastic character mapping, testing models of trait evolution (BM vs OU vs EB), inferring ancestral genome content via Dollo or DTL reconciliation, or quantifying ancestral-state uncertainty for downstream comparative analyses.

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Workflow for enrichment testing, ranked-gene analysis, pathway scoring, and pathway-focused visualization across omics outputs.

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Species abundance estimation using Bracken with Kraken2 output. Redistributes reads from higher taxonomic levels to species for more accurate estimates. Use when accurate species-level abundances are needed from Kraken2 classification output.

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Bulk transcriptomics differential expression with count-aware modeling, design validation, contrast handling, thresholded exports, and publication-ready DE figures.

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Workflow for orchestrating reproducible omics pipelines with workflow engines and clear execution provenance.

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Workflow for fine-mapping, colocalization, mediation, pleiotropy analysis, and Mendelian randomization.

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Workflow for nanopore or PacBio long-read QC, alignment, polishing, methylation-aware analysis, and structural variant discovery.

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Workflow for RNA modification analysis such as m6A peak calling, differential modification, and transcript-level visualization.

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Workflow for orthology, synteny, ancestral reconstruction, and evolutionary comparison across genomes.

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Workflow for retrieving public omics datasets, sequences, annotations, and literature-linked biological resources.

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Calculate and model paid-media CPA, CPL, CPC, CPM, ROAS, MER, break-even targets, contribution margin, LTV:CAC, impression-share opportunity, budgets, forecasts, and experiment economics. Use for PPC math, ad calculator, break-even analysis, ROAS calculator, CPA calculator, budget forecast, LTV CAC, or MER.

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You are an expert in Chi, the lightweight, idiomatic Go HTTP router built on `net/http`. You help developers build composable HTTP services using Chi's middleware stack, route groups, URL parameters, sub-routers, and context-based request scoping — providing Express-like ergonomics while staying 100% compatible with Go's standard library.

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World-class growth strategy expertise combining Andrew Chen's marketplace and network effects wisdom, Brian Balfour's growth frameworks, Casey Winters' Pinterest/Grubhub playbooks, and the best of Silicon Valley growth thinking. Growth is not marketing. Growth is the systematic application of product, engineering, and data to create compounding user acquisition, activation, and retention. It's a mindset, not a department. Use when "growth strategy, how do we grow, acquisition strategy, retention strategy, viral growth, network effects, growth loops, product-led growth, plg, ltv cac, unit economics, growth model, flywheel, compound growth, channel strategy, referral program, activation rate, magic moment, aha moment, growth experimentation, growth, strategy, acquisition, retention, viral, network-effects, plg, loops, experimentation" mentioned.

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Power systems engineering covering grid modeling, power flow analysis, energy storage dispatch, demand response, and electricity market economics. Spans transmission/distribution planning to real-time operations. Use when "power flow|load flow|grid model, energy storage|battery dispatch|ESS, demand response|load management|peak shaving, electricity market|LMP|locational marginal price, grid stability|frequency|voltage, capacity planning|resource adequacy, unit commitment|economic dispatch, transmission|distribution|power system, " mentioned.

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