'deno' 검색 결과

Profiles a genome from raw reads BEFORE assembly with a k-mer spectrum (KMC or Jellyfish histogram), then models it with GenomeScope2 to estimate genome size, heterozygosity, repeat content, and ploidy, and Smudgeplot to infer ploidy from heterozygous k-mer pairs (diploid AB vs triploid AAB vs tetraploid AABB). Covers choosing k via Merqury best_k.sh, the k-mer-coverage vs sequencing-coverage confusion, reading het/repeat/contamination/organelle peaks, why noisy ONT must not be used for counting, and how the estimate becomes the NG50 denominator, the Flye -g value, the hifiasm --hom-cov/purge setting, and the 1.5-2x-too-big haplotig sanity check. Use when starting any de novo assembly, deciding whether short reads can work, estimating genome size for an unknown organism, diagnosing ploidy, or sanity-checking an assembly's size against expectation.

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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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Map N6-methyladenosine (m6A) RNA modifications at single-nucleotide resolution using miCLIP (Linder 2015), miCLIP2 + m6Aboost machine learning (Kortel 2021), GLORI (Liu 2023, antibody-free chemical conversion), DART-seq (Meyer 2019, APOBEC1-YTH fusion), m6Anet (nanopore direct RNA), or MeRIP-seq with calibration. Use when distinguishing antibody-based from antibody-free m6A detection methods, applying the DRACH motif constraint, reconciling cross-method disagreements (DART 44% in DRACH vs GLORI), or detecting m6Am at the cap.

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Normalize read-depth copy-ratio profiles and segment them into copy-number regions using circular binary segmentation (CBS, DNAcopy), hidden Markov models, HaarSeg, and fused-lasso methods. Covers GC-content, mappability, and replication-timing (wave-artifact) bias correction, panel-of-normals/PCA denoising, diploid-baseline centering, and algorithm selection by sequencing depth and event size. Use when choosing a segmentation algorithm, correcting depth bias, diagnosing oversegmentation or a mis-centered baseline, tuning CBS or HMM parameters, or understanding why a downstream CNV caller produced fragmented or shifted segments.

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Detects aberrant splicing in single rare-disease patients vs a control panel using FRASER 2.0 (Bioconductor; Beta-binomial autoencoder on Intron Jaccard Index, default delta cutoff 0.1, q hyperparameter), OUTRIDER (gene-level outlier expression via autoencoder denoising), LeafcutterMD (Dirichlet-multinomial outlier mode of LeafCutter for annotation-free junctions), and DROP (Snakemake pipeline integrating FRASER2 + OUTRIDER + monoallelic expression for clinical diagnostics). The statistical model is fundamentally different from differential splicing — single-sample-vs-cohort outlier detection rather than two-group comparison. Standard tool in EU rare-disease (Solve-RD) and NIH UDN programs. Use when applying RNA-seq to undiagnosed Mendelian disease, validating predicted splice variants in clinical samples, or detecting cryptic splicing in disease tissue.

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Work with hyperspectral and multispectral images in MATLAB. Covers reading/writing (ENVI, NITF, TIFF, Sentinel-2, Landsat, ASTER), ECOSTRESS spectral libraries, processing (calibration, atmospheric correction, denoising, sharpening, dimensionality reduction, endmember extraction, unmixing, target/anomaly detection, spectral indices, segmentation), labeling (Spectral Image Labeler app, ground truth objects, automation algorithms), and deep learning (pixel classification CNNs, unmixing autoencoders, transfer learning). Use when reading, writing, processing, analyzing, classifying, labeling, or applying deep learning to hyperspectral or multispectral images.

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Load this first for any task involving images, pictures, photos, scans, frames, volumes, or visual data — including reading, writing, filtering, enhancing, denoising, sharpening, deblurring, thresholding, segmenting, masking, detecting, finding or counting objects, removing backgrounds, measuring, comparing, registering, stitching, aligning, cropping, resizing, transforming, or analyzing. Use for image I/O (TIFF, PNG, JPEG, RAW, HDR), histograms, edge detection, color processing, morphology, geometric transforms, deep learning for images, quality assessment, and 3-D volume processing. Also triggers when users describe image problems (dark, noisy, blurry, low contrast, uneven lighting, hazy, color cast) or data exploration tasks (folder of images, characterize data, understand format). Handles microscopy (cells, particles) and general scientific imaging. Routes to sibling skills for medical imaging (DICOM, NIfTI), hyperspectral data, and visual inspection.

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Use when lighting or rendering in Maya with Arnold: a product hero shot, a character close-up or a sequence (master and shot lighting), key, fill and rim placement, "the Arnold render is noisy" or fireflies, render settings and time budgets, AOVs, light groups and EXRs for Nuke, OIDN or noice denoising, ACES or OCIO color, renders that look flat or too dark, Render Setup layers, batch or command-line renders, or judging a lit frame like a lighting supervisor.

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Build Baidu ERNIE-Image / ERNIE-Image-Turbo workflows, primarily TEXT-TO-IMAGE. Pick ERNIE when you need precise multilingual text rendering, posters/signage, manga/anime multi-panel layouts, or strong instruction following for complex multi-object scenes. Also supports denoise-based image-to-image refine (NOT instruction-grounded editing; use Qwen-Image-Edit or Flux Kontext for "change X in this photo" edits).

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Use when building with the yahoo-finance2 TypeScript/Deno/npm library, using its Yahoo Finance data modules, CLI, or MCP server, or contributing to the yahoo-finance2 repository including modules, validation schemas, cached fixtures, and npm/JSR build output.

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Run Hugging Face models in JavaScript or TypeScript with Transformers.js, WebGPU, or WASM across browser, Node.js, Bun, and Deno. Use for client-side or JS-runtime inference, not Python training.

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Deployment patterns from Kubernetes to serverless and edge functions. Use when deploying applications, setting up CI/CD, or managing infrastructure. Covers Kubernetes (Helm, ArgoCD), serverless (Vercel, Lambda), edge (Cloudflare Workers, Deno), IaC (Pulumi, OpenTofu, SST), and GitOps patterns.

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Volcengine VOD audio and video processing tools skill. Use when users need VOD-based media processing or editing: upload local/URL media, stitch videos, trim clips, flip frames, change playback speed, create image-to-video, compose audio/video, extract audio, mix audio, separate vocals/accompaniment, denoise audio, enhance quality, AI super-resolution, frame interpolation, ASR speech-to-text, OCR text extraction, subtitle removal, subtitle embedding, scene slicing, portrait/green-screen matting, highlight extraction, comic style transfer, video translation, drama recap narration, drama script restoration, media info lookup, or playback URL retrieval. The skill submits async VOD jobs, polls task status, and returns generated output links. Not for pure text generation, real-time streaming, or source-free generative video creation.

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Use when you need to apply data-oriented programming best practices in Java — including separating code (behavior) from data structures using records, designing immutable data with pure transformation functions, keeping data flat and denormalized with ID-based references, starting with generic data structures converting to specific types when needed, ensuring data integrity through pure validation functions, and creating flexible generic data access layers. This should trigger for requests such as Improve the code with Data-Oriented Programming; Apply Data-Oriented Programming; Refactor the code with Data-Oriented Programming; Model Java data with records and pure functions; Separate Java behavior from immutable data structures; Validate data integrity with pure Java functions. Part of Plinth Toolkit

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Blender rendering with Cycles and Eevee including sampling, denoising, camera setup, render passes, color management, and render optimization. Use for final output and look validation via MCP.

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Designs relational and document database schemas from requirements or an existing app - tables and collections, keys, relationships, constraints, indexes driven by real query patterns, ERDs, and reversible migration scripts - with PostgreSQL (including Supabase) as the default and MySQL, SQLite, and MongoDB supported. Use when the user wants to model data for a new app or feature, review or fix an existing schema, choose keys or indexes, plan multi-tenancy, normalize or denormalize, or write CREATE TABLE statements or migrations, even if they just describe their app and ask "how should I store this". For moving data between database providers, use database-migrator.

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Fix features broken by REST API responses that flatten Nostr events, losing tag data. Use when: (1) A feature works for WebSocket-loaded events but not REST API-loaded ones, (2) A model field (like sha256, textTrackRef) is null for REST API data but set for WebSocket data, (3) REST API returns denormalized fields (d_tag, video_url) but omits raw tags array, (4) hasSubtitles/hasFeature returns false for REST-loaded videos. Common in Nostr clients that use both REST APIs (for analytics/bulk queries) and WebSocket (for real-time events).

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Think and work like an expert Computer Graphics Researcher. Use when a task calls for Computer Graphics Researcher judgment. Reasons from the rendering equation, Monte Carlo bias/variance, sampling theory, and BSDF energy conservation through pbrt-v4/Mitsuba 3 references, MIS/ReSTIR/path guiding, DXR 1.2 real-time stacks, 3DGS and NerfBaselines protocols, FLIP/ColorVideoVDP evaluation, OpenUSD/MaterialX/OpenPBR interchange, and ACES 2/OCIO color while treating unconverged references, unequal-time comparisons, denoiser and temporal-reuse bias, scene- vs display-referred color errors, and white-furnace energy failures as first-class failure modes.

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Think and work like an expert Clinical Embryologist. Use when a task calls for Clinical Embryologist judgment. Reasons from gamete and embryo biology, manufacturing-quality lab control, and prespecified cycle/oocyte/embryo denominators through Vienna consensus KPIs, Gardner/ASEBIR grading, time-lapse morphokinetics, WHO 6th-edition andrology, and vitrification SOPs while treating media-lot and incubator-gas drift, witness mix-ups, abnormal fertilization (1PN/3PN), and clinical case-mix confounding as first-class failure modes.

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Use when enhancing, upscaling, restoring, denoising, sharpening, deinterlacing, stabilizing, motion-deblurring, colorizing, SDR-to-HDR converting, or frame-rate/slow-motion converting video (and secondarily images) with Topaz Labs — whether cleaning up AI-generated video, compressed UGC, or old archival footage, or building a generate-low-res-then-upscale delivery pipeline. Covers choosing the right named Topaz model for a specific footage problem, setting parameters, driving the Topaz Platform (Video/Image) REST API's async job lifecycle, judging when enhancement helps versus when it introduces artifacts (over-smoothing, temporal shimmer, face hallucination), and QA of enhanced output. Do not use for originating new video content, non-Topaz upscalers, or purely editorial cuts.

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Operate AudioShake's cloud source-separation service (developer.audioshake.ai) to split a recording into stems. Use when a task involves isolating vocals, drums, bass, guitar, piano, keys, strings, or winds from music; separating dialogue / music / effects (DME) for film-TV post-production, localization, and dubbing; splitting a mixed recording into one stem per speaker; lyric transcription or word-level alignment; music detection/identification; or speech denoise/dereverb. Covers the Tasks API job lifecycle (assets, targets, formats, polling vs webhooks, credits, limits), choosing which stem targets a production actually needs, reviewing separated stems for bleed / artifacts / transient smearing / phase problems and repairing them, the rights and consent questions raised by separating copyrighted or third-party recordings, and the decision boundary for when a local open model such as Demucs is the better route than the API. Not for generating or synthesizing new audio, mixing, or mastering.

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Use NVIDIA Maxine / NVIDIA AI for Media audio effects for speech cleanup and enhancement in live or offline media pipelines, including Background Noise Removal, denoise+dereverb, room echo removal, acoustic echo cancellation, audio super-resolution, Studio Voice, Speaker Focus, and Voice Font. Use when selecting, integrating, prompting around, QAing, or privacy-reviewing NVIDIA AFX SDK or BNR NIM workflows for conferencing, broadcast, podcast, avatar, ad, social, and video post-production audio.

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End-to-end eDNA metabarcoding from raw amplicons to community ecology. Covers QC, primer removal, denoising with OBITools3 or DADA2, contamination filtering, taxonomy assignment, Hill number diversity, and constrained ordination. Use when processing environmental DNA samples for biodiversity assessment or ecological surveys.

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Processes environmental DNA metabarcoding data from raw amplicon reads to species occurrence tables using OBITools3, DADA2, and taxonomic assignment against BOLD, MIDORI2, or MitoFish databases. Handles COI, 12S, rbcL, and ITS barcode regions with primer removal, denoising, chimera detection, and contamination filtering via decontam. Includes occupancy modeling (occumb) for detection probability correction. Use when analyzing eDNA from water, soil, or bulk samples for biodiversity monitoring. Not for 16S human microbiome (see microbiome/amplicon-processing).

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