721 件 ・ 関連度順
概要と使いどころ
End-to-end genome-scale metabolic modeling from genome sequence to flux predictions. Covers automated reconstruction with CarveMe, model validation with memote, FBA/FVA analysis, and gene essentiality prediction. Use when building metabolic models or predicting metabolic phenotypes from genomic 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。
Orchestrates an end-to-end MeRIP-seq / m6A-seq analysis from raw FASTQ to differential m6A peak calls and metagene plots, chaining fastp adapter trimming, STAR splice-aware alignment (NO deduplication for non-UMI MeRIP), deepTools replicate-concordance + IP-enrichment QC, PreSeq saturation curves, exomePeak2 (transcript-aware Poisson GLM) peak calling, optional MACS3 broad-peak cross-check, DRACH motif confirmation as a sanity check (NOT a per-peak filter), exomePeak2 differential calling via the four-BAM-vector interface (bam_ip + bam_input control; bam_treated_ip + bam_treated_input treatment), ChIPseeker annotation, and the canonical Guitar metagene with stop-codon enrichment as the biological QC anchor. Use when running a complete MeRIP analysis from raw reads, when chaining the constituent epitranscriptomics skills (merip-preprocessing -> m6a-peak-calling -> m6a-differential -> modification-visualization), or when wrapping the pipeline in Snakemake / Nextflow.
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。
End-to-end clinical trial analysis workflow from CDISC SDTM/ADaM loading through ICH E9(R1) estimand-driven primary analysis to CONSORT 2025 regulatory-compliant reporting. Covers data preparation, FDA 2023 marginal vs conditional logistic regression, categorical tests with Boschloo, modern HTE/subgroup methods, missing-data sensitivity (MMRM, reference-based MI, Permutt tipping point), graphical multiplicity (Bretz-Maurer), survival analysis (Cox/RMST/competing risks) when applicable, and Table 1. Use when performing a complete analysis of clinical trial 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。
End-to-end CLIP-seq pipeline from FASTQ to ENCODE-compliant binding sites, single-nucleotide crosslink maps, annotation, motifs, and (optionally) differential binding. Use when running the full Yeo lab eCLIP / iCLIP / iCLIP2 / iCLIP3 / irCLIP / PAR-CLIP analysis with SMInput control, protocol-specific UMI extraction, ENCODE STAR parameters, CLIPper or Skipper peak calling with stringent log2 FC and -log10 p thresholds, IDR rescue and self-consistency QC, and downstream motif registration with mCross or PEKA.
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。
End-to-end GWAS workflow from VCF to association results. Covers PLINK QC, population structure correction, and association testing for case-control or quantitative traits. Use when running genome-wide association studies.
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。
Orchestrates an end-to-end long-read structural-variant pipeline - basecalling to minimap2 alignment (platform-matched preset) to Sniffles2/cuteSV/pbsv calling to optional assembly-based calling (dipcall/PAV) to two-step .snf cohort merging to Truvari benchmarking - chaining ONT and PacBio HiFi runs while handing the SV signal mechanism off to the component skills. Use when running a long-read SV workflow from reads to a benchmarked callset, choosing the minimap2 preset and SV caller by platform and goal, deciding when long reads are worth it for the insertions and repeat-mediated SVs short reads physically miss, building a joint-genotyped cohort with the two-step .snf design, or parameterizing a Truvari benchmark against GIAB HG002 Tier 1 plus CMRG. Not for the SV signal mechanism itself (see variant-calling/structural-variant-calling) or short-read SV.
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。
Orchestrates an end-to-end CRISPR editing experiment design from target gene to delivery-ready, validatable constructs. Sequences guide design, off-target assessment, edit-modality selection (knockout, base editing, prime editing, HDR knock-in), and template/donor design, with a QC checkpoint at each handoff. Use when designing a complete CRISPR experiment for knockout, point correction, or tagging and the order of operations, the modality decision, and the cross-cutting traps are needed rather than a single step. Defers each step's mechanics to the genome-engineering 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。
End-to-end eDNA metabarcoding from raw amplicons to community ecology. Covers QC, primer removal (mandatory before DADA2 filterAndTrim), denoising with OBITools3 v3 (obi stats plural; DMS-based) or DADA2 ASVs (Callahan 2017), decontam combined method as screening-not-classifier (Davis 2018), tag-jumping with NovaSeq 10x MiSeq caveat (Schnell 2015), Hill-number effective species counts with coverage-based rarefaction (Jost 2006; Chao & Jost 2012; doubling rule), beta-diversity decomposition with MANDATORY PERMANOVA + PERMDISP pair (Anderson & Walsh 2013), constrained ordination, and the read-counts-not-abundance critique (Lamb 2019). Use when processing eDNA samples for biodiversity assessment, deciding ASV vs OTU, configuring OBITools3 v3, interpreting decontam screening, or reporting community comparisons with the dispersion confound check.
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。
End-to-end Hi-C analysis workflow from FASTQ to compartments, TADs, and loops, with the decision of WHICH features the sequencing depth can support. Covers pairtools read-pair processing and library QC, cooler matrices, ICE balancing and distance-decay expected, A/B compartments, TAD boundaries, loop calling, and the routing of HiChIP/PLAC-seq/Capture Hi-C to protein-directed loop callers. Use when processing Hi-C data end to end, deciding a resolution for a given depth, or choosing between bulk-Hi-C and protein-directed loop calling.
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。
Orchestrates the end-to-end germline short-variant pipeline from FASTQ to a filtered, normalized, benchmarked VCF, chaining QC/trim, BWA-MEM2 alignment, duplicate marking, optional BQSR, calling (bcftools/GATK HaplotypeCaller/DeepVariant/DRAGEN), normalization, site+genotype filtering, annotation, and hap.py/vcfeval benchmarking. Use when deciding the pipeline-wide reference-genome commitment (GRCh38 analysis set vs T2T, ALT/decoy handling), sequencing the steps in the defensible order (normalize BEFORE annotate, filter site- then genotype-level), choosing the calling engine and single-sample vs cohort joint-calling, picking a filtering strategy by cohort size, or benchmarking stratified within GIAB confident regions. Hands off mechanism to the variant-calling and read-alignment component skills; not a re-teach of any single step.
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。
Orchestrates an end-to-end de novo genome assembly project, routing each step to the right genome-assembly skill rather than restating it. Profiles the genome first (k-mer spectrum -> size, heterozygosity, ploidy), QCs reads, chooses an assembly path by data type (SPAdes for Illumina, Flye for noisy long reads, hifiasm for HiFi, metaFlye for communities), polishes only when needed, decontaminates, scaffolds with Hi-C, and finishes with three-axis QC (contiguity + completeness + correctness). Use when assembling a genome from raw reads and deciding which assembler, whether to polish, and how to prove the result is good.
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。
Analyze metabolomics data end-to-end — metabolite identification, quantification (TIC normalization, batch correction), differential analysis, and pathway interpretation. Use for processing mass-spec metabolomics output, normalization choice, untargeted metabolomics workflows, and integrating with other omics layers.
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。
End-to-end molecular docking pipeline. Target preparation, pocket detection, protein-ligand docking (DiffDock/Vina), scoring, interaction analysis, and pose ranking.
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。
Review and rank an entire SCF round end-to-end from a CSV export. Supports Open Track, Integration Track, and RFP Track with track-specific scoring dimensions. Reads submission data directly from an Airtable CSV, auto-detects columns, categorizes, runs parallel batch reviews, cross-batch calibration, and final ranking. All output is markdown. Use when you have a CSV export of an SCF Build Award round and need to review, score, and rank every submission.
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。
Runs the Autoware autonomous-driving stack against CARLA on UE 5.8 over CARLA's native ROS 2 interface — no bridge process. Reports the DDS contract (rt/vehicle/status/* out, rt/control/command/* in), the Autoware-only sensor blueprints, generates the lanelet2 + point-cloud map artifacts Autoware needs instead of an .xodr, and drives the two shipped modes (classical NDT stack, or the camera-only VAD end-to-end model). Use when the user asks to "run Autoware on CARLA", "connect an AV stack", "drive the ego from Autoware", "generate a lanelet2 map", or asks which topics CARLA exchanges with Autoware.
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。
Builds CARLA (branch ue4-dev, Unreal Engine 4.26) from source on Linux end-to-end — UE4 fork, the Carla server (editor C++ modules), the LibCarla Python client wheel, and content — then verifies them against a from-source server. Optionally builds the native ROS 2 interface in (ROS2=1 → --ros2, Fast-DDS/CycloneDDS/Zenoh), which is compile-time only and cannot be enabled later. Use when the user asks to "build CARLA from source", "compile CARLA ue4-dev", "set up CARLA on Ubuntu (incl. 24.04)", "build CARLA with ROS2 support", or "produce a CARLA server + client wheel". Cooking a distributable Dist/ package is a separate skill (package-carla-ue4); running the build is run-carla-server.
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。
You MUST use this when building projects end-to-end. Orchestrates all 12 team roles — automatically switches between CTO, architect, PM, engineers, SRE, security, DBA, QA, and EM based on the current phase of work. Starts with brainstorming before any implementation.
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。
Orchestrate end-to-end backend feature development from requirements to deployment. Use when coordinating multi-phase feature delivery across teams and services.
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。
Optimize end-to-end application performance with profiling, observability, and backend/frontend tuning. Use when coordinating performance optimization across the stack.
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。
Automated end-to-end UI testing and verification on an Android Emulator using ADB.
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 a coding task should be driven end-to-end from issue intake through implementation, review, deployment, and acceptance verification with minimal human re-intervention.
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。
Automate browser testing, web scraping, and user workflow testing with Playwright across multiple browsers. Use when writing end-to-end tests for web applications, automating repetitive browser tasks, scraping data from websites, testing across Chrome/Firefox/Safari, taking screenshots for visual regression testing, testing authentication flows, filling and submitting forms programmatically, testing responsive designs across viewports, or any browser automation requiring reliable, cross-browser testing capabilities.
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。
Orchestrates end-to-end replication workflows spanning multiple concerns: new environment setup, production incident response, and performance optimization for AEM 6.5 LTS.
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。
Initialize an Adobe App Builder project end-to-end without Developer Console UI clicks. Creates the Console project and workspace, subscribes APIs (including those needing a product profile), maps user intent to the right template, runs non-interactive `aio app init`, and guides post-init customization. Use whenever the user mentions creating an App Builder app, scaffolding a project, `aio app init`, setting up an Experience Cloud extension, adding actions or web assets, creating a Console project or workspace, adding APIs, or bootstrapping App Builder — even if they don't say "App Builder". Also for SPA templates, AEM extensions, API Mesh, Asset Compute workers, and MCP server projects. Also handles debugging init failures — template not found, `aio app init` hangs or times out, Node version mismatches, npm install failures, post-init build errors, `aio login` issues, `aio app run` showing nothing, or `aio console project create` / `workspace create` / `workspace api add` errors.
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。