Results for “filtering”

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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Queries gnomAD v4 (807k samples), v3, v2.1.1, and constraint metrics with grpmax FAF95, bottleneck-group exclusion, LOEUF interpretation, SV/CNV/mtDNA catalogs, and Whiffin max-credible-AF framework. Use when filtering rare variants, applying ACMG BS1/BA1, ranking genes by LoF intolerance, or selecting between v2 (GRCh37 + chrX/Y constraint) and v4 (GRCh38 + 807k samples).

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Validates docked / generated protein-ligand poses using PoseBusters physical-validity tests, strain energy quantification, geometric checks (planarity, vdW overlap, bond/angle distortion), and pose-energy reasonableness. Filters AI-docking outputs (DiffDock, EquiBind, NeuralPLexer) where ~50% of poses fail physical-validity tests. Use when QC-ing docking results, comparing classical vs ML docking outputs, or filtering pose lists before SAR analysis.

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Searches molecular libraries for substructure matches using SMARTS patterns with explicit handling of recursive SMARTS, ring membership, aromaticity dialect, vector binding, atom map indices, and reactive/PAINS/REOS/Brenk/Aldridge filter catalogs. Use when filtering compounds by pharmacophore features, functional groups, scaffold matches, or screening for assay-interference / structural alerts.

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Predicts ADMET properties using ADMETlab 3.0 (119 endpoints with uncertainty), ADMET-AI, DeepChem MolNet, and chemprop D-MPNN with explicit handling of OECD QSAR principles, applicability domain assessment, calibration, hERG/CYP/AMES gold-standard endpoints, and PAINS / Lipinski / Ro5 / Veber / BBB druglikeness filters. Use when filtering compounds for drug-likeness, prioritizing leads by predicted safety, or building an in-house ADMET QSAR model.

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Filter alignments by flags, mapping quality, and regions using samtools view and pysam. Use when extracting specific reads, removing low-quality alignments, or subsetting to target regions.

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Build and validate a static DAG reachability index from source-qualified path/chain decompositions and partial transitive-edge filtering. NOT for treating a partial edge filter as a complete transitive reduction or runtime scheduler.

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Context and scope-tagging UI. Use when adding a context picker to a surface, tagging an entity to scopes, setting or filtering by the active (working) context, showing per-entity context status, prompting for context on upload, or editing context-assignment/**, active-context/**, or appContextSlice.

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Generates DDD Specification for PHP 8.5. Creates reusable business rule objects for validation, filtering, and querying with composite pattern support. Includes unit tests.

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Implement REST APIs in ABP Framework with AppServices, DTOs, pagination, filtering, and authorization. Use when building API endpoints for ABP applications.

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Ably real-time messaging patterns, WebSocket channel management, message validation and processing, staleness filtering, error recovery strategies, collaborative editing with drag-and-drop, optimistic updates for voting, real-time board collaboration, and Ably integration best practices for ree-board project

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ABP Framework application layer patterns including AppServices, DTOs, Mapperly mapping, Unit of Work, and common patterns like Filter DTOs and ResponseModel. Use when: (1) creating AppServices, (2) mapping DTOs with Mapperly, (3) implementing list filtering, (4) wrapping API responses.

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REST API design patterns including resource naming, status codes, pagination, filtering, error responses, versioning, and rate limiting for production APIs.

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REST API design patterns including resource naming, status codes, pagination, filtering, error responses, versioning, and rate limiting for production APIs.

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Process multimedia files with FFmpeg (video/audio encoding, conversion, streaming, filtering, hardware acceleration), ImageMagick (image manipulation, format conversion, batch processing, effects, composition), and RMBG (AI-powered background removal). Use when converting media formats, encoding videos with specific codecs (H.264, H.265, VP9), resizing/cropping images, removing backgrounds from images, extracting audio from video, applying filters and effects, optimizing file sizes, creating streaming manifests (HLS/DASH), generating thumbnails, batch processing images, creating composite images, or implementing media processing pipelines. Supports 100+ formats, hardware acceleration (NVENC, QSV), and complex filtergraphs.

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REST API design patterns including resource naming, status codes, pagination, filtering, error responses, versioning, and rate limiting for production APIs.

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Evaluate and prioritize opportunities through a structured filtering process. Use for resource allocation, strategic decision support, and project management.

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Query Google Analytics 4 (GA4) data via the Analytics Data API. Use when you need to pull website analytics like top pages, traffic sources, user counts, sessions, conversions, or any GA4 metrics/dimensions. Supports custom date ranges and filtering.

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Use when running integration tests in the VS Code repo. Covers scripts/test-integration.sh (macOS/Linux) and scripts/test-integration.bat (Windows), their supported arguments for filtering, and the difference between node.js integration tests and extension host tests.

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High-performance vector similarity search engine for RAG and semantic search. Use when building production RAG systems requiring fast nearest neighbor search, hybrid search with filtering, or scalable vector storage with Rust-powered performance.

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Managed vector database for production AI applications. Fully managed, auto-scaling, with hybrid search (dense + sparse), metadata filtering, and namespaces. Low latency (<100ms p95). Use for production RAG, recommendation systems, or semantic search at scale. Best for serverless, managed infrastructure.

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Open-source embedding database for AI applications. Store embeddings and metadata, perform vector and full-text search, filter by metadata. Simple 4-function API. Scales from notebooks to production clusters. Use for semantic search, RAG applications, or document retrieval. Best for local development and open-source projects.

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Expert web researcher using advanced search techniques and synthesis. Masters search operators, result filtering, and multi-source verification. Handles competitive analysis and fact-checking. Use PROACTIVELY for deep research, information gathering, or trend analysis.

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Create a clean PR branch by filtering out .planning/ commits — ready for code review

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