Data & Analytics

Scrape, crawl, search, and extract structured data from websites using Firecrawl API - converts web pages to LLM-ready markdown

Extracts, transforms, and analyzes NBA statistics using the nba_api Python library. Use when working with NBA player stats, team data, game logs, shot charts, league statistics, or any NBA-related data engineering tasks. Supports both stats.nba.com endpoints and static player/team lookups.

Proactively analyzes Parquet file operations and suggests optimization improvements for compression, encoding, row group sizing, and statistics. Activates when users are reading or writing Parquet files or discussing Parquet performance.

Generate detailed workflow reports with metrics, health assessments, and epic-specific analysis for GitHub Elements. Covers throughput, cycle times, compliance status, and thread history.

Create interactive data visualizations using D3.js. Use this when creating charts, graphs, network diagrams, geographic visualizations, or custom SVG-based data visualization.

This SOP provides a systematic workflow for training and deploying neural networks using Flow Nexus platform with distributed E2B sandboxes. It covers architecture selection, distributed training, ...

Analyze network traffic patterns, identify top applications and bandwidth usage, and optimize traffic management. Perform DPI-based traffic classification.

Create a FiftyOne dataset from a directory of media files (images, videos, point clouds), optionally import labels in common formats (COCO, YOLO, VOC), run model inference, and store predictions. Use when users want to load local files into FiftyOne, apply ML models for detection, classification, or segmentation, or build end-to-end inference pipelines.

Universal dataset import for FiftyOne supporting all media types (images, videos, point clouds, 3D scenes), all label formats (COCO, YOLO, VOC, CVAT, KITTI, etc.), and multimodal grouped datasets. Use when users want to import any dataset regardless of format, automatically detect folder structure, handle autonomous driving data with multiple cameras and LiDAR, or create grouped datasets from multimodal data. Requires FiftyOne MCP server.

AI-powered data analysis for Empathy Ledger. Use when working with themes, quotes, story suggestions, transcript analysis, storyteller connections, or any feature requiring extracted insights. Ensures consistent analysis patterns across the platform.

Transcribes video audio using WhisperX, preserving original timestamps. Creates JSON transcript with word-level timing. Use when you need to generate audio transcripts for videos.

--> --- name: bio-bioinformatics-singlecell description: Single-cell and multi-omic analysis for hematology, oncology, and translational biology. Use when working with scRNA-seq, CITE-seq, scATAC-seq, multiome, trajectory analysis, batch correction, cell typing, differential expression, or publication-ready figures in Scanpy, scvi-tools, Seurat, or MuData workflows. tool_type: mixed primary_tool: Unknown measurable_outcome: Execute skill workflow successfully with valid output within 15 minut...

End-to-end alternative splicing analysis from FASTQ to differential splicing results. Aligns with STAR 2-pass mode, performs junction QC, runs rMATS-turbo for differential analysis, and generates sashimi visualizations. Use when performing comprehensive splicing analysis from raw RNA-seq data.

End-to-end spatial transcriptomics workflow for Visium/Xenium data. Covers data loading, preprocessing, spatial analysis, domain detection, and visualization with Squidpy. Use when analyzing spatial transcriptomics data.

End-to-end proteomics workflow from MaxQuant output to differential protein abundance. Orchestrates data import, normalization, imputation, and statistical testing with MSstats or limma. Use when processing mass spectrometry proteomics.

End-to-end outbreak investigation from pathogen isolates to transmission networks. Orchestrates MLST typing, AMR surveillance, phylodynamic dating, and transmission inference with TransPhylo. Use when investigating disease outbreaks or tracking pathogen transmission chains.

End-to-end neoantigen discovery from somatic variants to ranked vaccine candidates. Integrates HLA typing, MHC binding prediction, pVACtools neoantigen calling, and immunogenicity scoring. Use when identifying tumor neoantigens for personalized vaccine design or checkpoint biomarkers.

End-to-end 16S amplicon workflow from FASTQ reads to differential abundance. Orchestrates DADA2 ASV inference, taxonomy assignment, diversity analysis, and compositional testing with ALDEx2. Use when processing 16S/ITS amplicon data.

End-to-end metagenomics workflow from FASTQ to taxonomic and functional profiles. Covers Kraken2 classification, Bracken abundance estimation, and HUMAnN functional profiling. Use when profiling metagenomic samples.

End-to-end metabolomics workflow from raw MS data to pathway analysis. Orchestrates XCMS preprocessing, annotation, normalization, statistical analysis, and pathway mapping. Use when processing LC-MS metabolomics data.

End-to-end genome-scale metabolic modeling from genome sequence to flux predictions. Covers automated reconstruction with CarveMe, model validation with memote, FBA/FVA analysis, and gene essentiality prediction. Use when building metabolic models or predicting metabolic phenotypes from genomic data.

End-to-end MeRIP-seq analysis from FASTQ to m6A peaks and differential methylation. Use when analyzing epitranscriptomic m6A modifications from immunoprecipitation data.

Cell-free DNA analysis pipeline from plasma sequencing to tumor monitoring. Preprocesses cfDNA reads, analyzes fragment patterns, estimates tumor fraction from sWGS, and optionally detects mutations from targeted panels. Use when analyzing liquid biopsy samples for cancer detection or monitoring.

End-to-end imaging mass cytometry workflow from raw acquisitions to spatial cell analysis. Orchestrates image preprocessing, segmentation, phenotyping, and spatial statistics. Use when analyzing imaging mass cytometry data end-to-end.