“processing”的搜索结果

Azure AI Text Analytics SDK for sentiment analysis, entity recognition, key phrases, language detection, PII, and healthcare NLP. Use for natural language processing on text.

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Turns Hi-C/Micro-C FASTQ into a deduplicated, filtered .pairs file with pairtools and decides whether the library worked. Covers the bwa mem -SP5M / bwa-mem2 / chromap --preset hic alignment idiom (mates mapped as independent single-end reads), pairtools parse vs parse2 and the walks-policy choice (5unique pairwise vs all for Pore-C/Micro-C concatemers), pair-type classification (keep UU and rescued UC), dedup (PCR vs optical/by-tile), select by pair_type/MAPQ/distance, restriction-fragment handling (restrict, Arima dual-enzyme, Micro-C/DNase fragment-free), and allele-specific phasing (pairtools phase to two coolers). The library-QC decision uses % long-range cis as the one-number quality metric, trans as the noise floor, orientation balance as fragment-map-free dangling-end/self-circle QC, and % duplicates as a complexity proxy. Use when processing Hi-C/Micro-C/Omni-C reads into pairs, judging library quality, handling multi-enzyme or restriction-agnostic protocols, or generating allele-specific contacts.

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Segment single cells from multiplexed IMC/MIBI tissue images using Mesmer/DeepCell, Cellpose, or ilastik+CellProfiler, covering whole-cell vs nuclear segmentation, the summed-membrane-channel decision, nuclear-expansion bias, lateral spillover, resolution-floor parameters, and downstream-proxy evaluation. Use when delineating cells after preprocessing, choosing a segmentation model, building a cell mask for quantification, diagnosing impossible double-positive populations, or troubleshooting over/under-segmentation.

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Load and preprocess imaging mass cytometry (IMC) and MIBI data from raw MCD/TXT through hot-pixel removal, spillover compensation, and variance-stabilizing transformation, covering readimc/steinbock ingestion, NNLS spillover compensation (CATALYST), IMC-Denoise, and the IMC arcsinh-cofactor question. Use when starting analysis from raw MCD files, building per-channel TIFF stacks, compensating channel spillover, choosing an arcsinh cofactor, or preparing single-cell intensities for phenotyping.

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Reads, inspects, and writes Flow Cytometry Standard (FCS) files from conventional, spectral, and mass cytometry (CyTOF), and parses FlowJo/Cytobank/Diva workspaces. Covers FCS 2.0/3.0/3.1/3.2 internals ($PnE linear-vs-log, $DATATYPE, $SPILLOVER vs SPILL vs $COMP, $TIMESTEP), channel/parameter metadata, the silent linearize/truncate defaults, and R (flowCore, flowWorkspace, CytoML) plus Python (FlowKit, readfcs) readers. Use when loading flow or mass cytometry data, mapping detector channels to antibodies, extracting the event matrix, choosing a reader, or bridging FCS to the scanpy/AnnData ecosystem before preprocessing.

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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 c_curve / lc_extrap, 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 — see Tips), choosing genome-vs-transcriptome alignment for downstream peak vs m6Anet workflows, recording antibody clone and lot metadata for downstream cross-batch reconciliation, detecting failed IPs via saturation curves and IP/input distribution shape, or generating IP-over-Input bigWig tracks for downstream visualisation.

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Processes eDNA metabarcoding from raw paired-end reads to species tables, navigating ASV (DADA2, UNOISE3) vs OTU (swarm v2) decision (Callahan 2017 vs Schloss multi-copy-16S critique), marker/primer choice (Leray COI, MiFish 12S, 515F/806R 16S, ITS2) with primer-specific bias, OBITools3 v3 command-name break (obi stats plural; .tar.gz taxonomy), tag-jumping with dual-indexing (Schnell 2015; NovaSeq 10x MiSeq), decontam as screening-not-classifier (Davis 2018), read-counts-not-abundance critique (Lamb 2019), site-occupancy modeling (Ficetola 2015), Naive-Bayes calibration limits (Bokulich 2018), and eDNA decay (Strickler 2015). Use when going from raw eDNA FASTQ to species tables, picking marker + denoising pipeline, deciding whether read counts represent abundance, applying occupancy modeling, configuring OBITools3 v3, or interpreting decontam output. Not for clinical 16S microbiome (see microbiome/amplicon-processing).

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Stores and operates on sparse expression matrices for single-cell and large bulk RNA-seq, covering dgCMatrix/dgRMatrix/dgTMatrix when-each-is-fast, the dgCMatrix (CSC, R) <-> CSR (Python) implicit transpose, AnnData (cells-rows) <-> SingleCellExperiment (cells-cols) orientation flip, HDF5/h5ad vs Zarr cloud-native shift, HDF5SummarizedExperiment + DelayedArray for out-of-memory bulk, scanpy backed mode for large h5ad, the ~10-15% density crossover where dense beats sparse, 10X format proliferation (MTX vs CellRanger H5 vs h5ad), the dense-conversion memory blow-up, and Dask + Zarr for consortium-scale matrices. Use when choosing sparse format, working with single-cell-sized matrices, importing/exporting 10X, debugging R/Python interop transposes, processing matrices too large for RAM, or building cloud-native pipelines.

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Designs genomics experiments so technical nuisance variation (batch, lane, plate, flow cell, operator, reagent lot, processing day) is balanced against the biological variable of interest and therefore estimable rather than confounded, using constrained sample-to-batch assignment (designit, OSAT), the confounder/mediator/collider distinction, and the principle that no post-hoc correction recovers a fully confounded design. Covers detecting hidden batches with surrogate variable analysis, a decision table for downstream correction (ComBat-seq, RUVSeq, SVA) whose execution is deferred to differential-expression/batch-correction, and reproducibility metadata. Use when assigning samples to sequencing batches/lanes/plates, avoiding batch-condition confounding, deciding whether a design is salvageable by correction, choosing a correction method, or estimating the number of hidden batches. For the experimental unit, randomization, and blocking concepts see experimental-design/randomization-blocking.

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Identify direct miRNA-target interactions from AGO HITS-CLIP, AGO-CLEAR-CLIP (chimeric reads), HEAP (Halo-Ago2 mouse), chimeric eCLIP / miR-eCLIP (deep miRNA-target profiling), or CLASH using chimeric-read processing pipelines, seed-pairing analysis, and 3' auxiliary pairing rules. Use when distinguishing direct miRNA targets from indirect, integrating CLIP-derived target maps with TargetScan / miRDB / DIANA predictions, applying canonical 7mer-8mer seed matching with 3' UTR context, or recovering miRNA-mRNA chimeras at scale.

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Preprocess CLIP-seq reads (eCLIP, iCLIP, iCLIP2, iCLIP3, irCLIP, PAR-CLIP, FLASH) with protocol-specific UMI extraction, adapter trimming, length filtering, and post-alignment PCR-duplicate collapse. Use when raw CLIP FASTQ must be turned into deduplicated, crosslink-preserving BAM input for peak calling; choosing between two-pass and single-pass adapter trimming; deciding minimum read length; or mapping UMI patterns to specific eCLIP/iCLIP/iCLIP2/iCLIP3 library preps.

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Trim PCR primers from aligned reads in amplicon-panel BAMs using samtools ampliconclip. Use when processing SARS-CoV-2 ARTIC, hereditary cancer panels, ctDNA hot-spot panels, or any amplicon assay where primer-derived bases would falsely confirm reference at primer footprints.

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Operationalizing an expungement website — user intake flows, document generation pipelines, court filing integrations, payment processing, state-by-state workflow variations, customer support for sensitive populations, and the handoff between automated systems and human legal review. Activate on 'expungement operations', 'legal tech SaaS', 'court filing integration', 'document automation pipeline', 'expungement business', 'legal service workflow', 'multi-state legal operations'. NOT for expungement law itself (use national-expungement-expert), web design (use legal-tech-web-design), or legal document drafting (use recovery-app-legal-terms).

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Expert data engineer for ETL/ELT pipelines, streaming, data warehousing. Activate on: data pipeline, ETL, ELT, data warehouse, Spark, Kafka, Airflow, dbt, data modeling, star schema, streaming data, batch processing, data quality. NOT for: API design (use api-architect), ML training (use ML skills), dashboards (use design skills).

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Decompose DAGs into execution chains using width bounds, stratification, virtual nodes, and matching. Use when minimizing workflow lanes in dependency graphs. NOT for cyclic graphs, generic scheduling, or one-off queries with no preprocessing payoff.

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Expert in turning data visualizations into compelling video and animation content for social media and marketing. Activate on: data commercial, animated chart, data storytelling video, chart animation, Remotion data video, Motion Canvas, Flourish animation, D3 animation, data viz social media, dashboard recording, data narrative video. NOT for: static data visualization (use data-viz-2025), general video editing (use video-processing-editing), full video production pipeline (use ai-video-production-master).

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Warehouse cost reduction, auto-scaling, query optimization, and lifecycle policies for data infrastructure. Activate on: data cost, warehouse credits, cost reduction, auto-scaling, lifecycle policy, cold storage, cost monitoring, resource optimization. NOT for: query performance tuning (use data-warehouse-optimizer), batch job optimization (use batch-processing-optimizer).

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Expert in color theory, palette harmony, and perceptual color science for computational photo composition. Specializes in earth-mover distance optimization, warm/cool alternation, diversity-aware palette selection, and hue-based photo sequencing. Activate on "color palette", "color harmony", "warm cool", "earth mover distance", "Wasserstein", "LAB space", "hue sorted", "palette matching". NOT for basic RGB manipulation (use standard image processing), single-photo color grading (use native-app-designer), UI color schemes (use vaporwave-glassomorphic-ui-designer), or color blindness simulation (accessibility specialists).

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Render mathematically-faithful Turkish marbling (Ebru) and paper-marbling with closed-form coordinate-deformation maps — a drop is a radial outward push, a comb/tine is a decaying shear, all composed as homeomorphisms over colored region boundaries. No fluid solver, runs 60fps on a 2D canvas. Use when building a marbling/Ebru toy or generative-art renderer, implementing drop/comb/wave/swirl deformations, scripting traditional patterns (Battal, Gel-Git, Şal, Bülbül Yuvası), keeping combed edges crisp via adaptive resampling, modeling ox-gall shouldering for crisp ring-in-ring drops, or exporting high-DPI marbled prints. NOT for real fluid / Navier-Stokes simulation, metaball / alpha-blended "smoke" blob effects, raster image-processing filters, or non-marbling generative art.

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Build audio transcription pipelines with Whisper, Deepgram, and AssemblyAI including speaker diarization and real-time streaming. Activate on: transcription, speech-to-text, diarization, audio processing, meeting transcripts. NOT for: text-to-speech synthesis (voice-audio-engineer), music generation (ai-engineer).

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Find and identify the CCSGameRules::TerminateRound function in the CS2 server binary using IDA Pro MCP. Use this skill when reverse engineering CS2 server.dll or libserver.so to locate the round-end-processing function by finding the code that references both the bare "TerminateRound" debug tag string and the "TerminateRound: unknown round end ID %i\n" warning-format string — both are referenced from the same function. Trigger: CCSGameRules_TerminateRound

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Comprehensive guide for developing WebGPU-enabled Three.js applications using TSL (Three.js Shading Language). Covers WebGPU renderer setup, node materials, compute shaders, post-processing, and WGSL integration. Use when working with Three.js WebGPU, TSL shaders, or GPU compute pipelines.

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Nutrient DWS APIを使用したドキュメントの処理、変換、OCR、抽出、墨消し、署名、フォーム入力。PDF、DOCX、XLSX、PPTX、HTML、画像に対応。

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Expert knowledge of income and tax integrations in melosys-api. Use when: (1) Understanding Inntektskomponenten/A-inntekt lookups, (2) Debugging skattehendelser Kafka processing, (3) Understanding årsavregning triggered by skatteoppgjør, (4) Investigating income data for trygdeavgift calculations.

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