Skill UI

A powerful tool designed for systematic literature reviews and meta-analyses. It searches scientific papers and retrieves highly structured experimental data directly from the full text, going beyond mere abstracts. It extracts over 25 fields, including detailed methods, quantitative results, sample sizes, quality scores, and conclusions, enabling comprehensive evidence synthesis for academic research.

Comprehensive Python toolkit for molecular biology: sequence manipulation, file parsing (FASTA/GenBank/PDB), phylogenetics, and programmatic NCBI/PubMed access. Ideal for batch processing, custom bioinformatics pipelines, and BLAST automation.

This skill provides programmatic access to the CZ CELLxGENE Census, a comprehensive collection of versioned public single-cell and spatial transcriptomics data. It enables efficient querying of population-scale cell metadata, gene expression slices, and embeddings without downloading entire datasets. Suitable for analyzing human, mouse, and other organism data across tissues and diseases. Integrates with Scanpy, AnnData, and TileDB-SOMA for large-scale analysis and machine learning workflows.

Prepares and validates research-only clinical decision-support evaluation, evidence-profile, cohort, survival, biomarker/model, privacy, and governance artifacts using aggregate or synthetic data. Not for patient care or live clinical use.

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.

Scale pandas and NumPy workflows beyond RAM using Dask for parallel and distributed computing. Ideal for processing large multi-file datasets, out-of-core DataFrames, big arrays, and unstructured data, from laptops to clusters.

Pythonic RDKit wrapper for molecular cheminformatics: parse and standardize SMILES, compute descriptors and fingerprints, cluster compounds, generate 3D conformers, and run parallel drug-discovery workflows.

An autonomous research agent that plans complex investigations using Directed Acyclic Graphs (DAGs). It executes sub-questions in parallel, performs gap analysis, and iteratively refines findings before synthesizing a comprehensive, structured report. Ideal for deep market analysis, academic literature reviews, or complex problem-solving requiring multiple data sources.

DeepTools is a comprehensive Python command-line toolkit for processing and analyzing high-throughput sequencing data. It supports quality control, normalization, sample comparison, and generating publication-quality visualizations for ChIP-seq, RNA-seq, and ATAC-seq experiments. Key features include converting BAM to bigWig, assessing sequencing depth, creating heatmaps around genomic features, and performing correlation analysis. Ideal for bioinformatics workflows requiring robust genomic data processing and visualization.

This tool provides access to the Cancer Dependency Map (DepMap) data, derived from genome-wide CRISPR screens, RNAi, and compound sensitivity assays. It allows users to query gene dependency scores, identify cancer-specific vulnerabilities, predict synthetic lethal interactions, and validate potential oncology drug targets across various cancer cell lines.

Build and operate reproducible genomics workloads on DNAnexus using dx CLI, dxpy, apps/applets, native workflows, and Nextflow. Supports data transfers, app development, execution monitoring, and project automation for genomic data analysis pipelines.

Analyze, edit, compare, annotate and visualize phylogenetic or hierarchical trees with ETE 4. Supports Newick/Nexus I/O, rooting and pruning, Robinson-Foulds topology comparison, gene-tree evolutionary events, NCBI/GTDB taxonomy queries and SmartView rendering.