General-Purpose Utilities
Domain-agnostic building blocks that scientific recipes reuse regardless of research area: data wrangling, plotting and visualization, general machine learning and statistics, numerical and symbolic computing, scientific communication (writing, figures, posters, citation management, literature and web search), compute infrastructure, and adjacent-domain scientific tools (quantum, materials, astronomy, geospatial) that overlap life-science problems. These are tagged for the utilities shelf only, so they stay off the seven research-area pages while remaining available to assemble into workflows.
Astropy (Claude Skill)
Claude Skill · K-Dense · GA
Core Python library for astronomy and astrophysics workflows that need Astropy APIs, including units/quantities, coordinates, FITS I/O, tables, time systems, WCS, and cosmology.
Autoskill (Claude Skill)
Claude Skill · K-Dense · GA
Observe the user’s screen via screenpipe, detect repeated research workflows, match them against existing scientific-agent-skills, and draft new skills (or composition recipes that chain …
Cirq (Claude Skill)
Claude Skill · K-Dense · GA
Google quantum computing framework.
Citation Management (Claude Skill)
Claude Skill · K-Dense · GA
Comprehensive citation management for academic research.
Consciousness Council (Claude Skill)
Claude Skill · K-Dense · GA
Run a multi-perspective Mind Council deliberation on any question, decision, or creative challenge.
DOCX (Claude Skill)
Claude Skill · K-Dense · GA
The user wants to create, read, edit, or manipulate Word documents (.docx files).
Dask (Claude Skill)
Claude Skill · K-Dense · GA
Distributed computing for larger-than-RAM pandas/NumPy workflows.
Exa Search (Claude Skill)
Claude Skill · K-Dense · GA
Web toolkit powered by Exa, tuned for scientific and technical content.
Exploratory Data Analysis (Claude Skill)
Claude Skill · K-Dense · GA
Perform comprehensive exploratory data analysis on scientific data files across 200+ file formats.
FluidSim (Claude Skill)
Claude Skill · K-Dense · GA
Framework for computational fluid dynamics simulations using Python.
Generate Image (Claude Skill)
Claude Skill · K-Dense · GA
Generate or edit images using AI models (FLUX, Nano Banana 2).
GeoMaster (Claude Skill)
Claude Skill · K-Dense · GA
Comprehensive geospatial science skill covering remote sensing, GIS, spatial analysis, machine learning for earth observation, and 30+ scientific domains.
GeoPandas (Claude Skill)
Claude Skill · K-Dense · GA
Python library for working with geospatial vector data including shapefiles, GeoJSON, and GeoPackage files.
Get Available Resources (Claude Skill)
Claude Skill · K-Dense · GA
This skill should be used at the start of any computationally intensive scientific task to detect and report available system resources (CPU cores, GPUs …
Hugging Science (Claude Skill)
Claude Skill · K-Dense · GA
The user is doing AI/ML work in a scientific domain such as biology, chemistry, physics, astronomy, climate, genomics, materials, medicine, ecology, energy, engineering, math …
HypoGeniC (Claude Skill)
Claude Skill · K-Dense · GA
Automated LLM-driven hypothesis generation and testing on tabular datasets.
Infographics (Claude Skill)
Claude Skill · K-Dense · GA
Create professional infographics using Nano Banana Pro AI with smart iterative refinement.
LaTeX Posters (Claude Skill)
Claude Skill · K-Dense · GA
Create professional research posters in LaTeX using beamerposter, tikzposter, or baposter.
LiteParse (Claude Skill)
Claude Skill · K-Dense · GA
Local document and PDF parsing with spatial text and bounding boxes.
MATLAB / Octave (Claude Skill)
Claude Skill · K-Dense · GA
MATLAB and GNU Octave numerical computing for matrix operations, data analysis, visualization, and scientific computing.
MarkItDown (Claude Skill)
Claude Skill · K-Dense · GA
Convert files and office documents to Markdown.
Markdown & Mermaid Writing (Claude Skill)
Claude Skill · K-Dense · GA
Comprehensive markdown and Mermaid diagram writing skill.
Matplotlib (Claude Skill)
Claude Skill · K-Dense · GA
Low-level plotting library for full customization.
Modal (Claude Skill)
Claude Skill · K-Dense · GA
Modal is a serverless cloud platform for running Python on demand, including on-demand GPUs.
NetworkX (Claude Skill)
Claude Skill · K-Dense · GA
Comprehensive toolkit for creating, analyzing, and visualizing complex networks and graphs in Python.
Open Notebook (Claude Skill)
Claude Skill · K-Dense · GA
Self-hosted, open-source alternative to Google NotebookLM for AI-powered research and document analysis.
OpenAlex (Claude Skill)
Claude Skill · SciAgent · GA
Query OpenAlex REST API for 250M+ scholarly works, authors, institutions, journals, concepts.
Optimize for GPU (Claude Skill)
Claude Skill · K-Dense · GA
GPU-accelerate Python code using CuPy, Numba CUDA, Warp, cuDF, cuML, cuGraph, KvikIO, cuCIM, cuxfilter, cuVS, cuSpatial, and RAFT.
PDF (Claude Skill)
Claude Skill · K-Dense · GA
The user wants to do anything with PDF files.
PPTX (Claude Skill)
Claude Skill · K-Dense · GA
A .pptx file is involved in any way — as input, output, or both.
PPTX Posters (Claude Skill)
Claude Skill · K-Dense · GA
Create research posters using HTML/CSS that can be exported to PDF or PPTX.
Parallel Web (Claude Skill)
Claude Skill · K-Dense · GA
All-in-one web toolkit powered by parallel-cli, with a strong emphasis on academic and scientific sources.
Peer Review (Claude Skill)
Claude Skill · K-Dense · GA
Structured manuscript/grant review with checklist-based evaluation.
PennyLane (Claude Skill)
Claude Skill · K-Dense · GA
Hardware-agnostic quantum ML framework with automatic differentiation.
Plotly (Claude Skill)
Claude Skill · SciAgent · GA
Interactive scientific visualization with Plotly.
Polars (Claude Skill)
Claude Skill · K-Dense · GA
Fast in-memory DataFrame library for datasets that fit in RAM.
PufferLib (Claude Skill)
Claude Skill · K-Dense · GA
High-performance reinforcement learning framework optimized for speed and scale.
PyMC (Claude Skill)
Claude Skill · K-Dense · GA
Bayesian modeling with PyMC.
PyTorch Geometric (Claude Skill)
Claude Skill · K-Dense · GA
PyTorch Geometric (PyG) for graph neural networks — node/link/graph classification, message passing (GCN, GAT, GraphSAGE, GIN), heterogeneous graphs, neighbor sampling, and custom datasets.
PyTorch Lightning (Claude Skill)
Claude Skill · K-Dense · GA
Deep learning framework (PyTorch Lightning / lightning package).
Pymatgen (Claude Skill)
Claude Skill · K-Dense · GA
Materials science toolkit.
Qiskit (Claude Skill)
Claude Skill · K-Dense · GA
IBM quantum computing framework.
QuTiP (Claude Skill)
Claude Skill · K-Dense · GA
Quantum physics simulation library for open quantum systems.
Research Grants (Claude Skill)
Claude Skill · K-Dense · GA
Write competitive research proposals for NSF, NIH, DOE, DARPA, and Taiwan NSTC.
Research Lookup (Claude Skill)
Claude Skill · K-Dense · GA
Look up current research information using parallel-cli search (primary, fast web search), the Parallel Chat API (deep research), or Perplexity sonar-pro-search (academic paper searches).
SHAP (Claude Skill)
Claude Skill · K-Dense · GA
Model interpretability and explainability using SHAP (SHapley Additive exPlanations).
Scholar Evaluation (Claude Skill)
Claude Skill · K-Dense · GA
Systematically evaluate scholarly work using the ScholarEval framework, providing structured assessment across research quality dimensions including problem formulation, methodology, analysis, and writing with quantitative …
Scientific Schematics (Claude Skill)
Claude Skill · K-Dense · GA
Create publication-quality scientific diagrams using Nano Banana 2 AI with smart iterative refinement.
Scientific Slides (Claude Skill)
Claude Skill · K-Dense · GA
Build slide decks and presentations for research talks.
Scientific Visualization (Claude Skill)
Claude Skill · K-Dense · GA
Meta-skill for publication-ready figures.
Scientific Writing (Claude Skill)
Claude Skill · K-Dense · GA
Core skill for the deep research and writing tool.
Seaborn (Claude Skill)
Claude Skill · K-Dense · GA
Statistical visualization with pandas integration.
SimPy (Claude Skill)
Claude Skill · K-Dense · GA
Process-based discrete-event simulation framework in Python.
Snakemake (Claude Skill)
Claude Skill · SciAgent · GA
Python-based workflow manager for reproducible, scalable pipelines.
Stable-Baselines3 (Claude Skill)
Claude Skill · K-Dense · GA
Production-ready reinforcement learning algorithms (PPO, SAC, DQN, TD3, DDPG, A2C) with scikit-learn-like API.
Statistical Analysis (Claude Skill)
Claude Skill · K-Dense · GA
Guided statistical analysis with test selection and reporting.
SymPy (Claude Skill)
Claude Skill · K-Dense · GA
You need exact symbolic math in Python — algebra, calculus, equation solving, symbolic linear algebra, or code generation via lambdify/LaTeX.
TimesFM (Claude Skill)
Claude Skill · K-Dense · GA
Zero-shot time series forecasting with Google’s TimesFM foundation model.
Transformers (Hugging Face) (Claude Skill)
Claude Skill · K-Dense · GA
Hugging Face Transformers for loading Hub models, running pipeline inference, text generation, and Trainer fine-tuning on NLP, vision, audio, and multimodal tasks.
UMAP-learn (Claude Skill)
Claude Skill · K-Dense · GA
UMAP dimensionality reduction.
US Fiscal Data (Claude Skill)
Claude Skill · K-Dense · GA
Query the U.S.
USPTO Patents (Claude Skill)
Claude Skill · SciAgent · GA
Access USPTO patent data via PatentsView REST API and Google Patents Public Data (BigQuery).
Vaex (Claude Skill)
Claude Skill · K-Dense · GA
Processing and analyzing large tabular datasets (billions of rows) that exceed available RAM.
Venue Templates (Claude Skill)
Claude Skill · K-Dense · GA
Access comprehensive LaTeX templates, formatting requirements, and submission guidelines for major scientific publication venues (Nature, Science, PLOS, IEEE, ACM), academic conferences (NeurIPS, ICML, CVPR …
What-If Oracle (Claude Skill)
Claude Skill · K-Dense · GA
Run structured What-If scenario analysis with 4–6 branch possibility exploration (best, likely, worst, wild card, contrarian, second-order).
XLSX (Claude Skill)
Claude Skill · K-Dense · GA
Create, edit, analyze, or convert Excel spreadsheets (.xlsx, .xlsm) where the workbook file is the primary deliverable.
Zarr-Python (Claude Skill)
Claude Skill · K-Dense · GA
Chunked N-D arrays for cloud storage (Zarr-Python 3).
aeon (Claude Skill)
Claude Skill · K-Dense · GA
Time series machine learning tasks including classification, regression, clustering, forecasting, anomaly detection, segmentation, and similarity search.
bioRxiv / medRxiv (Claude Skill)
Claude Skill · SciAgent · GA
Query bioRxiv/medRxiv preprints via REST API.
pymoo (Claude Skill)
Claude Skill · K-Dense · GA
Multi-objective optimization framework.
pyzotero (Claude Skill)
Claude Skill · K-Dense · GA
Interact with Zotero reference management libraries using the pyzotero Python client.
scikit-learn (Claude Skill)
Claude Skill · K-Dense · GA
Machine learning in Python with scikit-learn.
statsmodels (Claude Skill)
Claude Skill · K-Dense · GA
Statistical models library for Python.
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