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Visualize copy number profiles, segments, allele-specific tracks, and cohort patterns from CNVkit, GATK, ASCAT, FACETS, Sequenza, and other callers. Covers genome-wide and per-chromosome log2 scatter plots, B-allele-frequency/minor-allele-fraction tracks, ideograms, cohort heatmaps, circos views, and caller-native plots. Use when creating publication CNV figures, choosing which plot answers a given question, diagnosing a wrong diploid baseline visually, displaying loss of heterozygosity, or deciding what depth-only plots cannot reveal.

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Infer integer allele-specific copy number, tumor purity, and ploidy from tumor sequencing by jointly modeling read depth (logR) and B-allele frequency (BAF) with ASCAT, Sequenza, FACETS, PURPLE, and PureCN (tumor-only). Covers the purity-ploidy identifiability problem, the diploid-baseline (dipLogR) anchor, major/minor copy number, loss of heterozygosity, sunrise/contour fit diagnostics, and reconciliation of conflicting fits. Use when tumor analysis needs absolute copy number rather than relative log2, when estimating purity and ploidy, calling LOH or copy-neutral LOH, resolving whole-genome doubling, running tumor-only allele-specific calling, or choosing among ASCAT, Sequenza, FACETS, and PureCN.

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。

Project gene annotations across genomes using TOGA (Kirilenko 2023 whole-genome-alignment chain-based projection with intactness classification), CESAR 2.0 (Sharma, Schwede & Hiller 2017 codon-aware exon projection), LiftOff (Shumate & Salzberg 2021 reference-based annotation transfer), Liftover (UCSC), GeMoMa (Keilwagen 2019 evidence-based projection), and Comparative Annotation Toolkit (CAT). Use when transferring annotations from a well-annotated reference to query genome(s), classifying gene-loss vs gene-intact across many genomes at scale, building Zoonomia-style comparative annotations across hundreds of mammals or birds (Kirilenko 2023), detecting pseudogenization, projecting alternative isoforms, or selecting between WGA-anchored (TOGA) vs ortholog-based (LiftOff) annotation transfer strategies.

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。

Quantify homologous recombination deficiency (HRD) from tumor copy number using the three genomic-scar metrics — loss of heterozygosity (LOH), large-scale state transitions (LST), and telomeric allelic imbalance (TAI) — with scarHRD, and via the whole-genome HRDetect and CHORD models. Covers the genomic instability score, the PARP-inhibitor clinical context, whole-genome-doubling correction, and the scar-versus-state distinction. Use when computing an HRD score for PARP-inhibitor eligibility, deriving LOH/LST/TAI scars from allele-specific copy number, deciding between scar-based and mutational-signature HRD methods, or interpreting an HRD result in a BRCA-reverted or low-purity tumor.

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Detect horizontal gene transfer (HGT / LGT) using compositional methods (GC%, codon usage, tetranucleotide z-scores via SIGI-HMM, AlienHunter, IslandViewer 4, IslandPath-DIMOB), phylogenetic-incongruence methods (AvP, HGTphyloDetect, ALE / GeneRax / AleRax reconciliation, RANGER-DTL), and BLAST-distribution methods (HGTector v2, DarkHorse, Alien Index). Use when screening prokaryote genomes for genomic islands and HGT events, distinguishing HGT from incomplete lineage sorting / differential gene loss / hybridization, mapping donor lineages via phylogenetic placement, separating eukaryotic HGT from contamination, ruling out gBGC as a false signal, or quantifying DTL rates with ALE/GeneRax on bacterial trees.

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Recommends postpartum endocrine care (diabetes management) in addition to usual obstetric care for individuals with preexisting diabetes (including those with pregnancy loss or termination). Triggered by postpartum care planning for patients with diabetes after delivery.

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This skill recommends measuring serum cortisol or urine free cortisol off-medication at 6- to 12-month intervals to assess radiation therapy effect in patients with Cushing's syndrome undergoing or post-radiotherapy. It is also indicated when patients on stable medical therapy develop new adrenal insufficiency symptoms such as fatigue, weight loss, or hypotension.

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Recommends increasing hydrocortisone dose in pregnant patients with primary adrenal insufficiency based on individual clinical course, especially during the third trimester. Trigger phrases include "fatigue, postural hypotension, weight loss, or hyperglycemia in pregnant PAI patient" and "need for glucocorticoid dose adjustment in third trimester."

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The Endocrine Society guideline recommends against routine hormonal monitoring of glucocorticoid replacement in primary adrenal insufficiency and advises adjusting therapy solely based on clinical response. Use when evaluating glucocorticoid dose adequacy, such as when patients report fatigue, weight loss, hypotension, or signs of Cushingoid over-replacement.

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Screen a child aged 13+ with obesity for eligibility for bariatric surgery (laparoscopic sleeve gastrectomy or Roux-en-Y gastric bypass) using the CMAJ 2025 guideline. Trigger when a clinician asks whether a child qualifies for weight loss surgery, bariatric surgery in adolescents, sleeve gastrectomy in a teenager, or when to refer for surgical management of pediatric obesity.

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A relentless interview to sharpen a plan or design, which also creates docs (ADR's and glossary) as we go.

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。

Lossless LLM-optimized compression of source documents. Use when the user requests to 'distill documents' or 'create a distillate'.

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。

[Utilities] Use when you need to restore workflow context from checkpoint after session loss.

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。

A relentless interview to sharpen a plan or design, which also creates docs (ADR's and glossary) as we go.

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。

未知の用語に遭遇したとき、用語統一を確認するときに読む。

Critical Git safety rules to prevent destructive operations. Use whenever performing git operations, reverting changes, or managing commits. Prevents accidental loss of work.

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。

Critical Git safety rules to prevent destructive operations. Use whenever performing git operations, reverting changes, or managing commits. Prevents accidental loss of work.

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。

Build a rich, self-contained HTML explanation of a code change — diff, branch, commit range, MR/PR — with background, intuition, a code walkthrough, diagrams, and a glossary, then quiz the reader interactively in chat. Use when the user asks to explain a change, understand a PR/MR, walk through a diff, onboard onto a branch, or says "explain this PR", "what does this branch do", "teach me this change", or "/explain-diff".

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。

Prepares the contents of a dated backup of a custom skills folder and drafts a session journal entry, both for the user to save, so work can be resumed after a crash, a context loss or a skills wipe. Returns the copy action list, backup manifest, journal entry, resume summary and a restore plan whose steps the user confirms one by one and carries out. Use when the user asks to "back up my skills folder", "checkpoint this session", "write the session journal", "where did we leave off last time", "restore my skills from the last backup" or "take a safety copy before I edit this skill". Do not use for holding individual file changes for approval during ordinary work, use no-delete-guardrail instead. Drafts for human review; never approves, authorises or signs off.

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Use when generating, modifying, explaining, or reviewing TBQ3 Bar-based trading strategies with OnBar, OnInit, OnReady, entries, exits, MarketPosition, stop profit/loss, sizing, slippage, commission, multi-symbol, or cross-period logic.

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Restructure an always-loaded rules file such as CLAUDE.md or MEMORY.md: build a top block of key rules plus numbered categories, move rule bodies verbatim with a script that proves zero byte loss, fold heavy mechanics into trigger-plus-pointer form, then guards, a canary window and fleet rollout. For scheduled maintenance, not ad-hoc trimming. Triggers: "/canon-revision", "revise the canon".

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 WooCommerce's customer and session APIs correctly — WC ships its own session handler (WC_Session_Handler, single wp_woocommerce_sessions table for both guests and logged-in users) and its own customer object (WC_Customer via WC()->customer), separate from $_SESSION / native PHP sessions / wp_get_current_user. AI consistently reaches for $_SESSION (breaks with page caching, setcookie (no signing, no namespacing), or user_meta for guests (impossible). The correct path is WC()->session->set/get for ephemeral per-visitor data, WC()->customer->get_billing_* for the active customer context including guests, and new WC_Customer($user_id) for one-off loads. Important — WC()->session is auto-initialized only on frontend requests (incl. admin-ajax); REST, cron, and WP-CLI must call wc_load_cart() explicitly. Use when storing per-visitor state, reading the current visitor's billing data, or debugging session loss across page caches / REST / cron. Triggers on WC_Session, WC_Session_Handler,...

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。

Handle UTF-8 and text encoding safely in WordPress plugins, especially on WP 6.9+ where wp_is_valid_utf8(), wp_scrub_utf8(), and noncharacter helpers replace older seems_utf8-style checks. Covers when to validate, scrub, reject, or preserve invalid bytes; wp_check_invalid_utf8 behavior; XML/JSON/feed/export boundaries; and avoiding data loss from premature replacement. Use when processing imported text, CSV, XML, feeds, email, REST payloads, AI prompts, logs, filenames, or external API data.

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When the user wants to apply psychological principles, mental models, or behavioral science to marketing. Also use when the user mentions 'psychology,' 'mental models,' 'cognitive bias,' 'persuasion,' 'behavioral science,' 'why people buy,' 'decision-making,' 'consumer behavior,' 'anchoring,' 'social proof,' 'scarcity,' 'loss aversion,' 'framing,' or 'nudge.' Use this whenever someone wants to understand or leverage how people think and make decisions in a marketing context. For applying psychology to specific pages, see cro; for pricing tactics, see pricing; for copy framing, see copywriting.

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。