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Generate pileup data for variant calling using samtools mpileup and pysam. Use when preparing data for variant calling, analyzing per-position read data, or calculating allele frequencies.

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。

Perform multiple sequence alignment using MAFFT, MUSCLE5, ClustalOmega, or T-Coffee. Guides tool and algorithm selection based on dataset size, sequence divergence, and downstream application. Use when aligning three or more homologous sequences for phylogenetics, conservation analysis, or evolutionary 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。

Generate alignment statistics using samtools flagstat, stats, depth, coverage, and mosdepth. Use when assessing alignment quality, calculating coverage, or generating QC reports.

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。

Performs gene-level association from GWAS summary statistics via genetically predicted tissue expression using FUSION, PrediXcan, S-PrediXcan, S-MultiXcan, UTMOST, MOSTWAS, kTWAS, EpiXcan, TIGAR-V2, and probabilistic fine-mapping with FOCUS and MA-FOCUS. Use when running TWAS from GWAS sumstats, prioritising candidate causal genes from a GWAS lead locus, picking single-tissue vs cross-tissue models, identifying LD-induced TWAS false positives, choosing ancestry-matched prediction weights, fine-mapping co-regulated TWAS hits, or triangulating TWAS with cis-eQTL Mendelian randomization and colocalization to nominate a causal gene.

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。

Estimates SNP heritability and partitions it across functional annotations, cell types, and loci from GWAS summary statistics or individual-level genotypes. Implements LDSC, stratified LDSC with the baseline-LD model, Finucane 2018 cell-type prioritization, LDAK SumHer, HDL, HESS local heritability, BOLT-REML, GCTA-GREML, graphREML, and Popcorn cross-population genetic correlation. Use when computing total h2_SNP from summary stats, partitioning heritability across functional categories, prioritizing trait-relevant tissues or cell types from ENCODE/Roadmap chromatin marks, reconciling LDSC vs LDAK enrichment estimates, computing local heritability with HESS, estimating genetic correlation between traits, or producing publication-grade enrichment with calibrated sensitivity to model assumptions.

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。

Calculate alignment statistics including sequence identity, conservation scores, substitution matrices, and similarity metrics. Use when comparing alignment quality, measuring sequence divergence, and analyzing evolutionary patterns.

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。

Validate alignment quality with insert size distribution, proper pairing rates, GC bias, strand balance, and other post-alignment metrics. Use when verifying alignment data quality before variant calling or quantification.

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 differential-ready consensus peakset from per-replicate ATAC-seq peaks using iterative overlap removal, fixed-width re-centering, and majority-rule overlap. Use when generating a stable peak coordinate system for downstream differential accessibility, ML feature engineering, cross-sample comparison, or fixed-width peak counts; covers Corces 2018 iterative overlap (501 bp), DiffBind summit re-centering, and ENCODE consistency rules.

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。

Parse and analyze multiple sequence alignments using Biopython. Extract sequences, identify conserved regions, analyze gaps, work with annotations, and manipulate alignment data for downstream analysis. Use when parsing or manipulating multiple sequence alignments.

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。

Detects differential alternative splicing between conditions using rMATS-turbo (binomial LRT on junction counts), leafcutter (Dirichlet-multinomial GLM on intron clusters), MAJIQ V3 deltapsi/HET (Bayesian posterior on LSVs), SUPPA2 (empirical-null on TPM-derived PSI), or Shiba (junction-imbalance-corrected, 2025 SOTA at low coverage). Reports FDR-corrected significance and delta PSI effect sizes. Tools differ in statistical model, annotation dependence, calibration regime, and replicate-count requirements. Use when comparing splicing patterns between treatment groups, tissues, or disease states.

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。

Process and analyze single-cell ATAC-seq data with Signac, ArchR, SnapATAC2, or Cell Ranger ATAC. Use when handling 10X scATAC or 10X Multiome (paired RNA+ATAC) data, performing per-cell QC, choosing between ArchR/Signac/SnapATAC2 ecosystems, building per-cluster consensus peaksets, integrating with paired scRNA-seq, doublet detection (AMULET vs ArchR vs scDblFinder), or running pseudobulk differential accessibility per cluster.

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 work crosses into Apple's system surfaces rather than your own UI or data — Siri and Shortcuts, widgets, Live Activities, in-app purchase, localization, privacy prompts, alarms, timers, calendar, reminders, contacts, SharePlay, VoIP and CallKit, accessory pairing, weather, Spotlight indexing, background tasks, Background Assets, push, or push on networks with no internet.

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 working with ANY data persistence, database, storage, CloudKit, migration, or serialization in an Apple app. Covers SwiftData, Core Data, GRDB, SQLite, Realm, CloudKit sync, file storage, Codable, migrations.

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 writing ANY async code, actors, or threads in an Apple-platform app, or seeing ANY concurrency error. Covers Swift 6 concurrency, @MainActor, Sendable, data races, async/await patterns.

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。

Implement computer vision features including text recognition (OCR), face detection, barcode scanning, image segmentation, object tracking, and document scanning in iOS apps. Covers both the modern Swift-native Vision API (iOS 18+) and legacy VNRequest patterns, VisionKit DataScannerViewController for live camera scanning, and CoreMLRequest/VNCoreMLRequest for custom model inference. Use when adding OCR, barcode scanning, face detection, or custom Core ML model inference with Vision.

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。

Fetch WeatherKit current, minute, hourly, and daily forecasts; weather alerts; iOS 18+ changes, historical comparisons, summaries, and statistics; and required Apple Weather attribution. Use when integrating weather data, showing forecasts or alerts, caching WeatherKit responses, displaying attribution, or reviewing WeatherKit query limits in iOS apps.

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。

Access research-grade sensor data using SensorKit for approved studies. Use when an app needs SensorKit entitlement setup, Research Sensor & Usage Data authorization, ambient light, recorded motion, device usage, keyboard metrics, visits, speech, face, wrist temperature, ECG, PPG, acoustic settings, or sleep-session data. Route ordinary motion to CoreMotion and health records/workouts to HealthKit.

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 Apple CryptoKit for Swift cryptographic primitives. Use when hashing with SHA-2 or SHA-3, generating HMACs, encrypting with AES-GCM or ChaChaPoly, signing with P256/P384/P521/Curve25519 or ML-DSA keys, performing ECDH, HPKE, ML-KEM, or X-Wing key exchange, using Secure Enclave CryptoKit keys, or migrating CommonCrypto code to CryptoKit.

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。

Access Core Motion accelerometer, gyroscope, magnetometer, device-motion, pedometer, activity-recognition, altitude, headphone motion, batched high-frequency workout motion, and water-submersion/depth data. Use when reading device sensors, counting steps, detecting walking/running/driving/cycling, tracking altitude, building motion interactions, handling AirPods head tracking, or implementing watchOS dive/depth features.

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, review, or improve Core Data persistence in apps that have not adopted SwiftData. Use when working with NSManagedObject subclasses, NSFetchedResultsController for list-driven UI, NSBatchInsertRequest / NSBatchDeleteRequest / NSBatchUpdateRequest for bulk operations, NSPersistentHistoryChangeRequest for persistent history tracking and multi-target sync, NSStagedMigrationManager for staged schema migrations (iOS 17+), NSCompositeAttributeDescription for composite attributes (iOS 17+), or when integrating Core Data threading with Swift Concurrency. For Core Data + SwiftData coexistence or migration, see the swiftdata skill instead.

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 private, on-device AI features on iPhone, iPad, and Mac with Foundation Models, Core ML, MLX Swift, or llama.cpp. Use when choosing an Apple-local model runtime, building an Apple Intelligence chatbot or tool-calling feature, running an LLM on Apple Silicon, converting or compressing a Python model for Core ML, or comparing on-device inference backends. For Swift Core ML loading and prediction code, use the coreml skill.

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。

Read, create, update, and pick contacts using the Contacts and ContactsUI frameworks. Use when fetching contact data, saving new contacts, wrapping CNContactPickerViewController in SwiftUI, handling contact permissions, or working with CNContactStore fetch and save requests.

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。

Tokenize, tag, and analyze natural language text using Apple's NaturalLanguage framework and translate between languages with the Translation framework. Use when adding language identification, sentiment analysis, named entity recognition, part-of-speech tagging, text embeddings, or in-app translation to iOS/macOS/visionOS apps.

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。

Display and manipulate PDF documents using PDFKit. Use when embedding PDFView to show PDF files, creating or modifying PDFDocument instances, adding annotations (highlights, notes, signature widgets), extracting text with PDFSelection, navigating pages, generating thumbnails, filling PDF forms, or wrapping PDFView in SwiftUI.

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。