Herramientas

166 research skills maintained by K-Dense (formerly Claude Scientific Skills), spanning bioinformatics, cheminformatics, clinical research, materials and physics, including unified access to 78 public databases such as PubChem and UniProt. Works with Claude Code, Codex and Cursor.

Unified database lookup skill from K-Dense's scientific collection: reproducibly queries about 80 public database APIs such as PubChem, UniProt, ChEMBL, ClinicalTrials.gov and FRED, returning traceable results with endpoints, parameters and count checks. Some need API keys.

Teaches agents standard single-cell RNA-seq analysis with Scanpy: QC, normalization, PCA/UMAP, clustering, differential expression and plots, with ready-to-run pipeline scripts and guidance on converting Seurat and other R objects to h5ad. Needs Python 3.12+; by K-Dense.

Guides agents to the right statistical method for research data: t-tests, ANOVA, chi-square, regression and Bayesian analysis, checking assumptions, computing effect sizes and power, and reporting results in APA format. Python-based (pingouin, statsmodels); by K-Dense.

Creates, edits and validates reproducible Python and SQL Jupyter notebooks: organizes cells as reports or tutorials, checks conclusions against actual output and reruns top to bottom before handoff. Maintained by OpenAI in the Data Analytics plugin of openai/plugins.

OpenAI's official Codex plugin that guides sequencing analysis from BCL/FASTQ: QC, RNA-seq differential expression, single-cell, variant calling and metagenomics, favoring nf-core and other public pipelines with reproducible run logs. Checks for local tools first. Research use only.

Converts and two-way syncs Jupyter notebooks with plain Python scripts or Markdown, so agents can edit research and teaching notebooks like ordinary text and diffs stay readable. Needs a local Python environment; install with pip.

Empirical social science skills from Stanford REAP and CoPaper.AI, bundling 77 in-house and third-party collections: topic selection, literature reviews, DID/RD/IV identification, regression tables in Python, Stata or R, robustness audits and paper writing. Stata flows need Stata installed.

About 40 research skills from Google DeepMind: search arXiv, PubMed and OpenAlex, query UniProt, PDB, ClinVar, ChEMBL and more, run AlphaGenome variant analysis and render structures in PyMOL. Requires uv; AlphaGenome needs an API key, and keys raise limits for OpenAlex, ClinVar and others.

A three-stage workflow for math modeling contests like MCM/ICM and CUMCM: analysis, solving and plotting in Python or MATLAB, and a Word (optionally LaTeX) paper, with stage-check subagents and OpenAlex plus AnySearch literature search. Generated papers are for reference only.

From Harvard Medical School's Zitnik Lab: one MCP connecting 1,000+ scientific tools and databases for drugs and targets, genes and proteins, clinical trials, FDA data and PubMed, for biomedical and drug research. Runs with uv; some sources need API keys; medical conclusions need expert review.

MathWorks' official server that lets agents start your local MATLAB, write and run scripts and unit tests, and check code style and potential errors, for computing, simulation and data analysis. Needs a licensed MATLAB R2021a+ and the downloaded server binary.

Connects agents to live Jupyter notebooks: read, write, insert and execute cells and read multimodal outputs like charts, for interactive data analysis. Bring your own JupyterLab or JupyterHub; open source, maintained by Datalayer.

MathWorks' official toolkit: set up the MCP server via the MATLAB installer so agents can run code, run tests and do static checks; domain skill sets for signal processing, controls, statistics and machine learning install as Claude Code plugins. Needs MATLAB R2021a+.

Connects Stata to VS Code or Cursor and exposes a local MCP endpoint so Claude Code or Codex can write and run do-files and read regression output, with graphs shown in the editor; for empirical research. Needs a licensed Stata 17+, the extension installed and the editor open.

Two skills for the MCM/ICM and China's CUMCM math modeling contests: solver breaks down problems, picks models from a 95+ scenario decision matrix and gives Python or MATLAB templates; paper coaches abstracts, model validation and formatting from winning papers. Needs Python or MATLAB.

Posit's official R package connecting R to Claude Code and other agents: register your own R functions as tools and run them in your open R session, using its data. Out of the box it only switches sessions; add the btw package for docs lookup and data inspection tools. Requires R.

Wolfram's official agent tools: use the Wolfram Language and Wolfram|Alpha for symbolic and numeric math and scientific and statistical data, for teaching and research. The command runs the official Docker image with a free developer license; Wolfram 15+ users can install it in the app.

NASA's official MCP for its Common Metadata Repository: find Earth science and remote sensing datasets in plain language, check that data files exist for a given place and time, and get access services, related tools and citation info. No account to connect; downloads need an Earthdata login.