Skill UI

This skill provides direct command-line access to the Paperzilla platform, allowing users to manage, summarize, and retrieve academic research data. Users can fetch canonical papers in markdown format, get the latest project recommendations, analyze paper relevance, export data (JSON/Atom), and provide feedback on recommendations. It is an essential tool for researchers managing a large volume of academic literature.

Arboreto is a powerful Python library designed to infer Gene Regulatory Networks (GRNs) from various gene expression datasets, including bulk and single-cell RNA-seq. It employs scalable algorithms like GRNBoost2 and GENIE3 to identify critical transcription factor-target gene relationships. Featuring support for Dask distributed computing, Arboreto is optimized for large-scale, high-throughput transcriptomic analysis.

Provides programmatic access to massive, versioned public single-cell and spatial transcriptomics datasets from CZ CELLxGENE. This skill allows users to efficiently query specific subsets of cell metadata, gene expression matrices, embeddings, and summary statistics across various organisms, tissues, and diseases. It is ideal for large-scale, memory-efficient biological research and model training without full dataset downloads.

This skill performs comprehensive Exploratory Data Analysis (EDA) on specialized scientific datasets. It supports over 200 file formats across diverse domains, including chemistry (PDB), bioinformatics (FASTA, BAM), microscopy (TIFF), and spectroscopy. The system automatically detects the file type, assesses data quality and integrity, and generates detailed, format-specific markdown reports, providing deep insights and recommending downstream analyses.

A lightweight Python library designed for reading, parsing, and writing Flow Cytometry Standard (FCS) files. It extracts event data as NumPy arrays, handles complex metadata, and supports multiple FCS versions (2.0-3.1). Ideal for data preprocessing, building cytometry pipelines, and inspecting experimental results.

Histolab is a specialized Python library for digital pathology research, enabling robust processing of Whole Slide Images (WSI). It automates complex workflows including tissue detection, sophisticated segmentation, and flexible tile extraction from various formats (SVS, TIFF). This tool is crucial for preparing structured, high-quality datasets required for deep learning models and advanced computational pathology analysis.

This skill provides comprehensive integration with the LabArchives Electronic Lab Notebook (ELN) platform via its REST API. It allows users to programmatically manage notebooks, retrieve user data, automate entry creation, upload diverse attachments (PDF, CSV, images), perform full notebook backups, and generate detailed usage reports. Ideal for automating scientific workflows and integrating ELN data with tools like Jupyter or REDCap.

Matplotlib is Python's foundational library for creating highly customizable static, animated, and interactive visualizations. It supports various plot types (line, scatter, heatmap, 3D) and offers both pyplot and object-oriented interfaces. Ideal for generating publication-quality scientific charts, complex multi-panel figures, and integrating into notebooks.

Medchem is a powerful Python library designed for molecular filtering and prioritization in drug discovery. It allows users to apply rigorous, literature-derived drug-likeness rules (e.g., Lipinski, Veber, CNS), detect structural alerts (PAINS, NIBR), calculate complexity metrics, and combine multiple criteria using a custom query language. It is essential for compound library triage and hit-to-lead optimization.

This skill utilizes the TimesFM foundation model for zero-shot forecasting of any univariate time series. It predicts future values with calibrated probabilistic intervals without requiring custom model training. It includes a mandatory preflight system checker to ensure adequate RAM, GPU, and disk resources for safe, local inference across various data types (sales, sensor, energy).

Provides comprehensive programmatic control over Apify's core data infrastructure, including Datasets, Key-Value Stores, and Request Queues. This skill allows users to perform CRUD operations on various storage types, manage data persistence, and orchestrate complex, multi-stage data pipelines (e.g., scrape -> transform -> export). Ideal for building robust, end-to-end web scraping and data processing automation workflows.

This comprehensive guide demonstrates how to scrape live webpages using Bright Data's Web Unlocker proxy. It details how to bypass advanced anti-scraping mechanisms, such as CAPTCHAs and fingerprinting, automatically. Users are provided with full code examples in both Node.js and Python, showing methods for scraping via the proxy endpoint and through the dedicated REST API. Ideal for starting new scraping projects or integrating Bright Data into existing workflows.