Skill UI

A toolkit for phylogenetic tree manipulation, event detection, NCBI taxonomy integration, and publication-quality visualization, streamlining phylogenomics workflows and gene family analysis.

A comprehensive toolkit for reconstructing and analyzing the evolutionary history of biological sequences (genes, proteins, genomes). The standard workflow includes multiple sequence alignment using MAFFT, robust maximum likelihood tree inference with IQ-TREE 2 and FastTree, and advanced visualization/manipulation using ETE3. This skill is essential for studies in viral phylodynamics, microbial genomics, protein family evolution, and molecular clock dating.

This skill provides systematic methods and advanced techniques to deobfuscate multi-layered PowerShell malware. It utilizes Abstract Syntax Tree (AST) analysis, dynamic execution tracing, and specialized tools to reveal hidden payloads, C2 infrastructure, and the original malicious logic. It is essential for security analysts, red teamers, and incident response teams performing deep malware analysis.

Perform interactive malware analysis in the ANY.RUN cloud sandbox to trigger real-time behavior, inspect process trees, monitor network traffic, and capture system changes without local sandbox setup.

A comprehensive guide to performing digital forensics on SQLite databases. This skill covers recovering deleted records from freelists, analyzing Write-Ahead Log (WAL) files, and examining the internal B-tree structure to extract crucial evidence from sources like browser history and messaging apps. Essential for incident response and security auditing.

Biopython is a robust, comprehensive toolkit for computational molecular biology written in Python. It enables users to manipulate biological sequences (DNA, RNA, protein), parse standard formats (FASTA, GenBank, PDB, etc.), and programmatically access major bioinformatics databases like NCBI via Entrez. This skill is ideal for developing complex bioinformatics pipelines, including sequence alignment, structural analysis, and phylogenetic tree construction.

ETE is a comprehensive toolkit for phylogenomic research, designed to handle and analyze hierarchical tree structures. It supports various tree formats (Newick, NHX) and provides advanced functionalities such as detecting evolutionary events (duplication/speciation), identifying orthologs/paralogs, integrating with NCBI taxonomy for lineage tracking, and generating publication-quality visualizations in PDF/SVG.

This comprehensive skill provides a standardized pipeline for reconstructing the evolutionary history of biological sequences (genes, proteins, genomes). It guides users through essential steps, including multiple sequence alignment using MAFFT, maximum likelihood tree inference with IQ-TREE 2, and visualization with ETE3. Ideal for research in viral phylodynamics, molecular clock studies, and large-scale comparative genomics.

scikit-bio is a comprehensive Python library designed for advanced bioinformatics and biological data analysis. It provides robust capabilities for sequence manipulation (DNA, RNA, Protein), performing complex sequence alignments (pairwise and multiple), constructing and analyzing phylogenetic trees, and calculating diverse ecological metrics. It is essential for microbiome analysis, evolutionary studies, and general biological data processing, supporting standard formats like FASTA, Newick, and BIOM.

This comprehensive guide teaches users how to set up a ClickHouse database environment. It covers creating a MergeTree table, inserting structured event data using TypeScript, and executing essential analytical queries (e.g., counting, grouping, unique user metrics). Ideal for beginners learning OLAP databases, testing connections, or mastering core data warehousing concepts.

This skill provides a direct, fast shell invocation to capture the current git diff (staged, working-tree, or specific file list) as raw text. It is designed to replace slower LLM agent steps that merely execute 'git diff' commands, significantly speeding up CI/CD workflows and meta-steps that require repository state analysis.