Skill UI

This advanced research technique is designed for deep dives into football topics. Instead of relying solely on the original query, it mandates tracking every discovered entity—such as player names, club names, or coaches—from search results. By treating these entities as new leads, the user must formulate follow-up searches using the discovered names and remaining constraints, ensuring nothing relevant is overlooked and building a comprehensive knowledge chain.

Aeon is a comprehensive, scikit-learn compatible Python toolkit designed for advanced time series analysis. It supports a wide range of temporal machine learning tasks, including classification, regression, clustering, forecasting, anomaly detection, and similarity search. Use this skill when working with sequential patterns, time-indexed observations, or complex temporal data that requires specialized algorithms.

AnnData is a specialized Python package designed for managing and analyzing annotated matrices, particularly crucial in single-cell genomics and bioinformatics. It efficiently stores experimental measurements (X) alongside comprehensive metadata (obs, var, obsm, etc.). This skill allows users to read, write, subset, and concatenate large, complex datasets in formats like .h5ad and .zarr, making it essential for scRNA-seq analysis workflows and integration with the scverse ecosystem.

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.

This tool opens the dedicated Context Mode Insight dashboard in your default browser. Insight serves as the central analytics layer for AI-assisted engineering teams, providing crucial metrics such as per-engineer productive rates, identifying retry waste, detecting blockers, and offering role-narrowed performance views. It is designed to be the single source of truth for comprehensive team performance monitoring and sign-in details.

Dask is a powerful Python library designed for parallel and distributed computing. It allows users to scale existing pandas and NumPy workflows beyond the limits of available RAM, processing massive datasets up to the terabyte scale. It provides specialized APIs (DataFrames, Arrays, Bags) for handling structured, scientific, and unstructured data efficiently across single machines or multi-node clusters.

DeepChem is a comprehensive Python library designed for applying machine learning to complex fields like chemistry, materials science, and biology. It enables users to perform molecular property prediction (e.g., ADMET, toxicity), train models using specialized graph neural networks (GNNs), and process diverse molecular formats (SMILES, SDF, FASTA). It provides extensive featurization options, making it foundational for drug discovery and computational chemistry research.

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.

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.

Geniml is a comprehensive Python package designed for applying machine learning models to genomic interval data, typically stored in BED files. It provides several unsupervised methods—including Region2Vec and BEDspace—to learn robust embeddings of genomic regions, single cells (scATAC-seq), and associated metadata. Use cases include dimensionality reduction, structural variation analysis, cell-type annotation, and cross-modal querying in genomics research.

This skill provides comprehensive tools to analyze and engineer protein glycosylation patterns. It scans amino acid sequences for canonical N-glycosylation sequons (N-X-S/T) and predicts O-glycosylation hotspots. Use cases include optimizing therapeutic antibodies, designing vaccine antigens, and characterizing biosimilars by rationally modifying glycan structures for improved stability, function, or immune evasion.

Gtars is a high-performance toolkit written in Rust with Python bindings, designed for comprehensive analysis of genomic interval data. It provides specialized modules for overlap detection, generating coverage tracks (WIG/BigWig), tokenization for Machine Learning models, and detailed fragment analysis in single-cell genomics. Use it for robust bioinformatics pipelines and computational genomics research.