Skill UI

deepTools is a Python command-line suite for NGS workflows, converting BAM files into normalized coverage, running QC (fingerprint, correlation, PCA), comparing samples, and rendering heatmaps or profiles for ChIP-seq, RNA-seq, and ATAC-seq analyses.

Trackio is an essential library for logging, visualizing, and analyzing machine learning training experiments. It provides multi-interface support: a Python API for real-time metric logging and alert firing during training; a Command Line Interface (CLI) for retrieving historical metrics and alerts; and synchronization capabilities to Hugging Face Spaces for persistent dashboards. This tool is crucial for debugging, diagnosing training issues (like loss spikes), and automating ML workflow iteration.

The Paperzilla skill provides direct command-line access to interact with Paperzilla data. Users can fetch the latest research recommendations, summarize canonical papers in markdown format, view project feeds, leave feedback, and export data in various formats (JSON, Atom). It is essential for researchers needing structured insights into academic projects and literature.

deepTools is a comprehensive command-line toolkit designed for processing and analyzing high-throughput sequencing data. It handles core genomics tasks including BAM to bigWig conversion, quality control assessment (PCA, correlation), normalization, and generating publication-quality visualizations (heatmaps, profiles) for ChIP-seq, RNA-seq, and ATAC-seq data. Essential for reproducible genomic research workflows.

gget is a comprehensive command-line and Python package providing unified access to over 20 major bioinformatics databases. Users can perform deep analyses across genomics, proteomics, and disease associations. Key functions include gene information lookups, sequence alignment (BLAST), structural prediction (AlphaFold), single-cell analysis, and enrichment studies, supporting both interactive queries and automated pipelines.

A dedicated skill for performing manual data synchronization and knowledge recall with OpenViking. It allows users to explicitly trigger chat transcript syncing from OpenClaw sessions and perform targeted memory searches via command line, without disrupting normal conversation flow or occupying the standard context engine slot.

Use the HasData CLI to access real-time, structured web data from major platforms. This tool provides dedicated subcommands for various APIs (including Google SERP, Amazon, Zillow, Booking, etc.), enabling users to automate data collection, scrape specific URLs, and retrieve structured information like local business listings, product pricing, and real estate data directly from the command line.

A powerful command-line utility that transforms virtually any website into a structured CLI command. By utilizing OpenClaw's browser, it allows users to scrape and extract structured data (such as JSON) from over 36 platforms—including social media, finance, and developer communities—directly from the terminal. This tool eliminates the need for complex scraping code or browser extensions, making web data accessible via simple one-liners.

A unified command-line interface for querying numerous web search engines (including Brave, DuckDuckGo, Bing, Baidu, etc.) simultaneously. It aggregates results from diverse sources and normalizes them into a consistent JSON format, making it ideal for deep research, fact-checking, or comparing search engine coverage across global and regional sources.

The Tabular Editor CLI (`te`) is a cross-platform, command-line utility for managing the entire lifecycle of semantic models (TMDL/BIM). It allows users to scaffold, inspect, validate, deploy, refresh, test, and query data models against various services, including Power BI, Fabric, and Azure AS, directly from the terminal. Ideal for automated workflows and CI/CD pipelines.

A comprehensive guide on querying data stored in Fabric's OneLake using DuckDB. This skill supports two operational modes: local command line interface (CLI) for ad-hoc analysis, and in-notebook mode for seamless integration within Fabric notebooks. It can read Delta Lake tables and various raw formats (Parquet, CSV, JSON), making it ideal for data exploration, validation, and schema discovery in a read-only fashion.

This guide details how to assemble a comprehensive, reproducible replication package for academic manuscripts, especially in fields relying on complex institutional data (e.g., court records, contracts). It mandates creating a one-command master script, documenting the entire data pipeline from raw sources to final exhibits, and providing detailed protocols for hand-coded variables and data provenance. The goal is to ensure that any researcher can perfectly reproduce every finding.