Scientific Agent Skills is a collection of reusable procedures that give AI agents capabilities for scientific research across areas such as biology, chemistry, medicine, and drug discovery. It is used by researchers and by people building AI scientist workflows with compatible coding agents. The catalogue contains many of the project's skills and supporting instructions.
Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add K-Dense-AI/scientific-agent-skills --skill optimize-for-gpugit clone --depth 1 https://github.com/K-Dense-AI/scientific-agent-skillsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/k-dense-ai/scientific-agent-skills/optimize-for-gpu)<a href="https://agentmods.dev/skills/k-dense-ai/scientific-agent-skills/optimize-for-gpu"><img src="https://agentmods.dev/badge/skills/k-dense-ai/scientific-agent-skills/optimize-for-gpu/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/k-dense-ai/scientific-agent-skills/optimize-for-gpu"><img src="https://agentmods.dev/badge/skills/k-dense-ai/scientific-agent-skills/optimize-for-gpu.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- Socket pass
- Snyk pass
- NVIDIA SkillSpector pass
What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00151 | $0.02875 |
| Opus 5 | $0.00076 | $0.01437 |
| Sonnet 5 | $0.00030 | $0.00575 |
| Haiku 4.5 | $0.00015 | $0.00287 |
Grade A, and why
optimize-for-gpu scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 7d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 194 lines — stays where its author put it; the contents beside it link to each section on GitHub.
GPU Optimization for Python with NVIDIA
Treat GPU acceleration as an evidence-driven optimization, not an automatic rewrite. Preserve the user's numerical and algorithmic contract, measure with representative data, and keep the GPU version only when synchronized end-to-end benchmarks show a useful improvement.
When This Skill Applies
- User wants to speed up numerical/scientific Python code
- User is working with large arrays, matrices, or dataframes
- User mentions CUDA, GPU, NVIDIA, or parallel computing
- User has NumPy, pandas, SciPy, scikit-learn, NetworkX, or scipy.sparse.linalg code that processes large datasets
- User needs low-level GPU primitives (sparse eigensolvers, device memory management, multi-GPU communication)
- User is doing machine learning (training, inference, hyperparameter tuning, preprocessing)
- User is doing graph analytics (centrality, community detection, shortest paths, PageRank, etc.)
- User is doing vector search, nearest neighbor search, similarity search, or building a RAG pipeline
- User has Faiss, Annoy, ScaNN, or sklearn NearestNeighbors code that could be GPU-accelerated
- User wants GPU-accelerated interactive dashboards, cross-filtering, or exploratory data analysis on large datasets
- User is doing geospatial analysis (point-in-polygon, spatial joins, trajectory analysis, distance calculations) with GeoPandas or shapely
- User is doing image processing, computer vision, or medical imaging (filtering, segmentation, morphology, feature detection) with scikit-image or OpenCV
- User is working with whole-slide images (WSI), digital pathology, microscopy, or remote sensing imagery
- User is loading large binary data files into GPU memory (numpy.fromfile → cupy, or Python open() → GPU array)
- User needs to read files from S3, HTTP, or WebHDFS directly into GPU memory
- User mentions GPUDirect Storage (GDS) or wants to bypass CPU-memory staging for file IO
- User is doing physics simulation (particles, cloth, fluids, rigid bodies) or differentiable simulation
- User needs mesh operations (ray casting, closest-point queries, signed distance fields) or geometry processing on GPU
- User is doing robotics (kinematics, dynamics, control) with transforms and quaternions
- User has Python simulation loops that could be JIT-compiled to GPU kernels
- User mentions NVIDIA Warp or wants differentiable GPU simulation integrated with PyTorch/JAX
- User is doing simulations, signal processing, financial modeling, bioinformatics, physics, or any compute-intensive work
- User wants to optimize existing code and GPU acceleration is the right answer
What ships with it
15 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
- references/code_transformation_patterns.md 9.2 KB
- references/cucim.md 20 KB
- references/cudf.md 20 KB
- references/cugraph.md 27 KB
- references/cuml.md 23 KB
- references/cupy.md 21 KB
- references/cuspatial.md 14 KB
- references/cuvs.md 20 KB
- references/cuxfilter.md 18 KB
- references/decision_framework.md 16 KB
- references/installation.md 4.7 KB
- references/kvikio.md 17 KB
- references/numba.md 25 KB
- references/raft.md 11 KB
- references/warp.md 19 KB
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 7d ago First seen · 194 lines · 151 tokens per session scan A 5df21c95ec62
optimize-for-gpu is a skill published in the GitHub repository K-Dense-AI/scientific-agent-skills (44,220 stars, last pushed 3d ago), licensed MIT. It adds 151 tokens to every session and 2,875 once invoked, about $0.0008 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-03.
Other skills, from other repositories
python-pipeline
Python data pipelines with modular architecture. Use for content workflows, batch jobs, or Google Sheets/Drive integration.
alterlab-scikit-learn
Classical machine learning in Python with scikit-learn — algorithms, preprocessing, pipelines, and best-practice reference documentation. Use when working with supervised learning (classification, regression), unsupervised learning (clustering, dimensionality reduction), model evaluation, hyperparameter tuning…
datarobot-setup
Sets up DataRobot for local development including Python SDK, dr-cli, Agent Assist, and all required dependencies. Use when the user has not yet worked with DataRobot on this machine, OR when any DataRobot task fails due to missing or invalid credentials. Covers first-time setup, re-authentication, and credential…
pytorch-lightning
Deep learning framework (PyTorch Lightning). Organize PyTorch code into LightningModules, configure Trainers for multi-GPU/TPU, implement data pipelines, callbacks, logging (W&B, TensorBoard), distributed training (DDP, FSDP, DeepSpeed), for scalable neural network training.
leiloeiro-edital-ranbot-ai
Analise e auditoria de editais de leilao judicial e extrajudicial. Riscos ocultos, clausulas perigosas, debitos, ocupante e classificacao da oportunidade.
mloda-plugins
Guide an AI agent through building mloda (https://github.com/mloda-ai/mloda) plugins: FeatureGroup, ComputeFramework, and Extender classes. Use to check the mloda-registry index for an existing plugin before writing one, when writing or reviewing a FeatureGroup/ComputeFramework/Extender implementation, or when…