Skill UI

Process, clean, compare, and search tandem mass spectra with matchms 0.33.1. Covers MS/MS file I/O, metadata harmonization, peak filtering, spectral similarity scoring, library matching, score matrices, and molecular-similarity networks in Python.

Unified Python library with 100+ molecular featurizers and pretrained embeddings. Converts SMILES or RDKit molecules into ML-ready numerical features for QSAR modeling, virtual screening, similarity search, and deep learning.

Build or audit reproducible research workflows with NeuroKit2 for physiological time-series: preprocessing, event/interval analysis, multimodal alignment, variability and complexity on ECG, RSP and EDA signals.

Self-hosted open-source alternative to Google NotebookLM. Organize research sources, generate AI notes and summaries, create multi-speaker podcasts, chat with documents, and search materials via full-text or vector search with 16+ AI providers.

Build local, research-only computational pathology workflows with PathML: load and tile whole-slide images, run preprocessing and QC pipelines, manage h5path data, quantify multiplex images, construct spatial graphs, and plan bounded model inference.

This skill enables the construction and analysis of phylogenetic trees using tools like MAFFT for alignment, IQ-TREE 2 for maximum likelihood inference, and FastTree for large datasets. It supports evolutionary analysis, microbial genomics, viral phylodynamics, and molecular clock studies. Visualization is handled via ETE3 or FigTree. Ideal for inferring evolutionary relationships, detecting horizontal gene transfer, and reconstructing ancestral sequences in biological research.

Query the PrimeKG precision medicine knowledge graph to search genes, drugs, diseases, and phenotypes, retrieve associated neighbors, analyze disease context, and explore drug repurposing paths.

PyTDC enables discovery of therapeutic machine learning tasks, access to approved datasets, task-aware data splits, evaluation metrics, benchmark groups, and molecular oracle workflows. Designed for biomedical research and drug discovery applications using Python.

Manage Zotero reference libraries programmatically with the pyzotero Python client and Zotero Web API v3. Retrieve, create, update and delete items, collections, tags and attachments; search libraries and export BibTeX or CSL-JSON citations for research automation workflows.

A comprehensive guide for optimizing query latency in Qdrant. This resource explains advanced performance tuning techniques, focusing on critical resource management like RAM utilization, segment count adjustments, and HNSW parameter tuning. It details strategies for scaling, quantization, and hardware considerations (e.g., local NVMe) to ensure consistently low-latency search performance, and outlines common pitfalls to avoid.

Python cheminformatics toolkit for fine-grained molecular control: SMILES/SDF parsing, descriptors (MW, LogP, TPSA), fingerprints, substructure search, 2D/3D coordinate generation, similarity, reactions, and visualization.

Write competitive research proposals for NSF, NIH, DOE, DARPA, and NSTC. Covers agency-specific formatting, review criteria, budgets, broader impacts, significance, innovation, and compliance.