仕事効率化のスキル

Aligns and QCs methylated-RNA-immunoprecipitation (MeRIP / m6A-seq) IP and input libraries using STAR or HISAT2 splice-aware mapping, samtools sort/index, IP/input matched-pair tracking, antibody-lot metadata recording, replicate concordance via deepTools multiBamSummary + plotCorrelation, IP enrichment QC via plotFingerprint and per-transcript IP/input ratio distributions, library-complexity saturation curves via PreSeq, and the explicit do-NOT-deduplicate convention for standard non-UMI MeRIP. Use when preparing paired IP and input BAM files for exomePeak2 / MeTPeak / MACS3 peak calling, evaluating MeRIP replicate concordance and IP enrichment, deciding whether to deduplicate (standard MeRIP typically NOT), choosing genome-vs-transcriptome alignment for downstream peak vs m6Anet workflows, recording antibody clone and lot metadata for cross-batch reconciliation, detecting failed IPs via saturation curves and IP/input distribution shape, or generating IP-over-Input bigWig tracks for visualisation.

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Call copy number variants with the GATK best-practices workflows — the somatic CNV pipeline (CollectReadCounts, DenoiseReadCounts with tangent normalization, ModelSegments, CallCopyRatioSegments) and the germline GATK-gCNV pipeline (DetermineGermlineContigPloidy, GermlineCNVCaller cohort/case mode, PostprocessGermlineCNVCalls). Covers panel-of-normals construction, AnnotateIntervals/FilterIntervals, allelic-count integration, and QS-based filtering. Use when integrating CNV calling into a GATK variant pipeline, calling rare germline CNVs from an exome cohort, deciding between the somatic and germline GATK workflows, or diagnosing why tangent normalization removed a real event or why gCNV output has low precision.

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Identifies essential genes from CRISPR-Cas9 fitness screens using BAGEL2 (Kim & Hart 2021 Genome Med), a Bayesian classifier scoring per-gene Bayes Factors via log-likelihood ratios over per-sgRNA fold changes, calibrated against CEGv2 core-essentials (Hart 2017 G3, ~684 genes) and NEGv1 non-essentials (Hart 2014, ~927 genes). Covers the fc + bf + pr workflow, the linear-extrapolation improvement over BAGEL1 truncation, multi-target off-target correction, tumor-suppressor sensitivity (BAGEL2 detects enrichment), and BF calibration (BF >6 ≈ 90% posterior per Hart 2017; ~5% FDR by BAGEL convention). Use when classifying essential vs non-essential genes, calibrating BAGEL2 thresholds against PR curves, identifying tumor suppressors alongside essentials, comparing BAGEL2 hits to MAGeCK / drugZ, or generating publication-quality essentiality calls.

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Track complex, multi-session work with dependency graphs using bd (beads) issue tracker. Use when work spans multiple sessions, has complex dependencies, or requires persistent context across compaction cycles. For simple single-session linear tasks, TodoWrite remains appropriate.

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Build automated billing systems for recurring payments, invoicing, subscription lifecycle, and dunning management. Use when implementing subscription billing, automating invoicing, or managing recurring payment systems.

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Triage an incoming request — pick the workflow entry phase (intake / spec / tdd / chore) and record the workflow statefile that the Track Guard reads.

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On-demand "what's new" generator. Main context (which knows the impending change) writes keepachangelog-style entries to a fragment file at `.claude/state/whatsnew/<slug>.json` (gitignored, transient). An optional per-project `project.json → whatsnew.route_workflow` names a routing workflow that consumes the fragment and renders it wherever the project wants (a site page, a release body, a docs page). Not a workflow phase — it never blocks a commit, and it never writes `CHANGELOG.md` (that file is owned solely by semantic-release in CI).

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Decompose an approved spec into a dependency-ordered swarm plan — one task per component, each with an explicit write_set. Produces `.claude/state/swarm/<slug>.json` with tasks + waves. The wave scheduler guarantees pairwise-disjoint write_sets within each wave so parallel dispatch is provably conflict-free.

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Read-only release + backlog recap. Reports the last release, commits-since-tag classified by conventional-commit type with the semver bump they trigger and pushed-vs-origin state, the backlog bucketed (open/picked-up/dropped with epic parent→child nesting), the roadmap epics with their per-task tallies, and condensed open questions — then recommends the next pickup. One `cli.mjs recap` call returns all six recap keys. Invoke any time (on demand) to plan a release or choose the next thing to build; a compact form is also surfaced at session start. Not a workflow phase; never writes CHANGELOG; never starts or commits work.

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Read-only view of the execution roadmap. Lists every epic with its per-status tallies, nests the still-open rows beneath their epic, collapses wholly-finished epics into one rollup line, and closes by naming the next planned task in file order. Four verbs — `list` (the reader's view), `tasks` and `epics` (filterable row and epic queries), `next` (the first planned task). Invoke any time to see what is left to build. Not a workflow phase; never writes; never starts or commits work.

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Workflow Phase 7 — Mechanical cleanup pass over the branch diff, followed by a `code-structure` review pass and a `verify` re-stamp. Shadows the global `simplify` skill at project scope; the cleanup pass is performed inline rather than via Skill self-call.

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Workflow Phase 2 — Codebase Scouting and Constraint Discovery. Maps the relevant slice of the codebase for a given task. Produces a scout report at `docs/scout/<slug>.md` naming the files, modules, and patterns the proposed work touches or constrains. Report decisions execute in main context with full conversation visibility; gathering MAY be delegated to read-only advisory subagents (seed.md §4.2-A).

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Run an org-team workflow — a flat pod of up to four peer Claude Code sessions claims lane-tagged slices of an approved spec over the baseline MCP channel and implements them concurrently, each in its own git worktree. Each peer DECIDES its own in-lane implementation choices in its own main context (Article X); only un-decidable or cross-lane forks escalate peer→lead→human (yield_fork for task-bound forks, ask_lead for free-form queries). Opt-in and OFF by default (velocity.org_mode.enabled). Graduates the retired sprint-dispatch prototype into the constitutionally-sanctioned org-team model (Article X — Multi-session coordinated workflows). Requires git.

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Propose the next dependency-ready sprint from the ALREADY-DECOMPOSED roadmap — standup's active sibling. Reads docs/roadmap-execution-plan.md + the memory backlog, computes per-task readiness from the roadmap's machine-readable status, orders with roadmap-planner's graph engine, and emits a proposed task-set (sprint-plan manifest shape) with per-feature done-criteria, excluding unready tasks and naming their unmet prerequisite. PROPOSES ONLY — the human confirms/edits before /triage routes it (typically to the `power` track). Distinct from `sprint-plan`, which decomposes a fresh vision.

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End-to-end workflow orchestrator. Walks the 11-phase pipeline, invoking each phase skill in order inside an internal loop, yielding at consent gates (/approve-direction, /approve-swarm, /grant-commit), and exiting cleanly on yield/failure/done. Decides swarm-vs-solo at Phase 6. Auto-loops /tdd on integrate failures that don't require a spec change. The harness_continuation Stop hook is a safety net that re-fires harness only when the loop exited mid-flow.

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Analyze a codebase and recommend Claude Code automations (hooks, subagents, skills, plugins, MCP servers). Use when user asks for automation recommendations, wants to optimize their Claude Code setup, mentions improving Claude Code workflows, asks how to first set up Claude Code for a project, or wants to know what Claude Code features they should use.

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Use for creative thinking, or when the user wants many fresh options before choosing: "give me ideas", "brainstorm names", "other ways to do this", "think outside the box". Diverges first, then picks. Skip when one answer is wanted or the task is pure execution.

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Use when the user describes a problem, decision or stuck situation but names no method: "how should I approach this?", "help me think this through", "we can't decide", "where do I start?". Picks the best-fit thinking method and runs it. Skip for plain execution tasks or when a method is named.

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Compact the current conversation into a handoff document for another agent to pick up.

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Interview the user relentlessly about a plan or design until reaching shared understanding, resolving each branch of the decision tree. Use when user wants to stress-test a plan, get grilled on their design, or mentions "grill me".

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Ultra-compressed communication mode. Cuts token usage ~75% by dropping filler, articles, and pleasantries while keeping full technical accuracy. Use when user says "caveman mode", "talk like caveman", "use caveman", "less tokens", "be brief", or invokes /caveman.

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Triage issues through a state machine driven by triage roles. Use when user wants to create an issue, triage issues, review incoming bugs or feature requests, prepare issues for an AFK agent, or manage issue workflow.

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Create new agent skills with proper structure, progressive disclosure, and bundled resources. Use when user wants to create, write, or build a new skill.

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Use when you have a spec or requirements for a multi-step task, before touching code

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。