Skill UI

End-to-end Neuropixels recording analysis covering SpikeGLX/OpenEphys/NWB loading, preprocessing, motion correction, Kilosort4 sorting, quality metrics, Allen/IBL curation, and AI-assisted visualization for extracellular electrophysiology.

Provides GraphQL queries to the Open Targets Platform for target-disease associations, tractability, safety, drugs, and multi-omics evidence to guide therapeutic target identification, safety assessment, and repurposing research workflows.

Plotly is a Python graphing library for interactive, publication-quality visuals that bring hover, zoom, animation, and dashboard-ready exports to exploratory analysis and presentations.

Scanpy is a scalable Python toolkit for single-cell RNA-seq analyses, covering QC, normalization, dimensionality reduction, clustering, marker discovery, annotation, and publication-ready visualization across h5ad/10X/CSV datasets.

scikit-bio provides a Python-native biological data toolkit for reading/writing FASTA/Newick files, manipulating sequences, building alignments and phylogenies, and calculating diversity metrics for microbiome and ecology workflows.

Seaborn is a powerful Python library for creating publication-quality statistical graphics. It is designed for dataset-oriented plotting, making it ideal for exploratory data analysis, multivariate analysis, and visualizing complex relationships, distributions, and comparisons with minimal code. It builds upon Matplotlib, offering high-level interfaces for functions like scatterplots, heatmaps, and pair plots.

SimPy is a powerful, process-based discrete-event simulation framework written in Python. It is designed for modeling complex systems where entities interact with shared resources and time-based events occur, such as manufacturing lines, service queues, network traffic, or logistics networks. Use this skill to analyze resource contention, simulate process optimization, conduct capacity planning, and model dynamic system behaviors.

A comprehensive guide for systematic statistical analysis, designed for academic research. This skill assists in selecting the correct hypothesis tests (t-test, ANOVA, regression, chi-square), checking assumptions (normality, homogeneity), performing advanced analyses (Bayesian methods, power analysis), calculating effect sizes, and generating full APA-formatted reports for publication.

TileDB-VCF lets you ingest, store, query, and export large genomic VCF/BCF datasets using TileDB’s sparse arrays, supporting incremental sample growth, parallel regions queries, and cloud-local interoperability for population genomics workflows.

TorchDrug is a PyTorch-native toolbox for building graph neural networks tailored to molecules, proteins, and biomedical knowledge graphs, covering property prediction, generation, retrosynthesis, and knowledge graph reasoning with curated datasets and models.

Use UMAP for fast nonlinear manifold reduction to produce embeddings that keep local and global structure, making it ideal for visualization, clustering preprocessing, supervised/parametric workflows, or high-dimensional feature engineering.

Query UCSF’s ZINC22 repository of 230M+ purchasable compounds via the web UI or CartBlanche APIs to fetch IDs/SMILES, run similarity, supplier, or random sampling, and assemble docking-ready libraries for virtual screening.