Research

Rowan is a comprehensive skill for computational chemistry that provides cloud-based access to quantum chemistry workflows including pKa prediction, geometry optimization, conformer searching, protein-ligand docking, and AI-powered protein cofolding. It wraps the rowan-python and stjames libraries to enable molecular property calculations without requiring local computational resources.

This skill provides comprehensive reference documentation for MATLAB and GNU Octave numerical computing environments. It covers matrix operations, linear algebra, data visualization, file I/O, differential equations, signal processing, and Python integration with extensive code examples and best practices.

This skill provides comprehensive documentation for accessing the National Cancer Institute's Imaging Data Commons (IDC), a public repository of cancer imaging data. It teaches users how to query, download, and visualize radiology and pathology images (CT, MR, PET, slide microscopy) using the idc-index Python package, with guides for BigQuery advanced queries and DICOMweb integration.

This skill provides comprehensive documentation and Python templates for programming Opentrons lab automation robots (OT-2 and Flex). It covers liquid handling operations, hardware module control (thermocycler, heater-shaker, magnetic modules), and common protocol patterns like serial dilutions and PCR setup.

This skill provides comprehensive documentation for integrating with OMERO, an open-source platform for managing microscopy images. It covers connection management, data access, image processing, ROI creation, metadata annotations, OMERO tables, and server-side scripts for batch operations in scientific imaging workflows.

This skill provides comprehensive documentation for integrating with the LatchBio platform for bioinformatics workflows. It covers workflow creation using Python decorators, cloud data management with LatchFile/LatchDir, resource configuration for CPU/GPU tasks, and pre-built verified workflows like AlphaFold and DESeq2. No code is executed - it serves as a reference guide.

This skill provides programmatic access to LabArchives electronic lab notebook platform. It enables users to authenticate, list and backup notebooks, create entries, upload attachments, and integrate with third-party scientific tools like Protocols.io, Jupyter, and REDCap for research documentation workflows.

This skill provides comprehensive documentation for integrating with DNAnexus, a cloud platform for biomedical data analysis and genomics. It covers app/applet development, file upload/download operations, job execution, workflow orchestration, and the dxpy Python SDK for building genomics pipelines with FASTQ, BAM, and VCF files.

Provides comprehensive documentation for integrating with Benchling, a cloud platform for life sciences R&D. Covers Python SDK usage, REST API endpoints, authentication methods, registry management, inventory operations, electronic lab notebooks, and workflow automation.

This skill provides comprehensive LaTeX templates, formatting requirements, and submission guidelines for major scientific publication venues including Nature, Science, Cell, IEEE, ACM, NeurIPS, NSF, and NIH. It includes helper scripts to search templates, customize them with author information, and validate document formatting against venue specifications.

This skill helps create professional scientific presentations and slide decks for research talks, conferences, and academic defenses. It uses AI (Nano Banana Pro) to generate visually engaging slides, supports multiple output formats (PDF, PowerPoint, LaTeX Beamer), and includes comprehensive guidance on presentation structure, timing, and design principles.

This skill generates publication-quality scientific diagrams (flowcharts, neural network architectures, biological pathways, circuit diagrams) from natural language descriptions using AI. It features iterative quality refinement with different thresholds for journals, presentations, and posters.

This skill enables real-time academic research lookups using Perplexity's Sonar models through OpenRouter. It intelligently selects between fast lookup (Sonar Pro Search) and deep analytical reasoning (Sonar Reasoning Pro) based on query complexity, providing citations and source attribution for scholarly research.

A comprehensive research grant writing skill that provides agency-specific guidance for NSF, NIH, DOE, DARPA, and Taiwan NSTC proposals. Includes templates for specific aims, project summaries, budget justifications, and broader impacts, along with utility scripts for compliance checking and deadline tracking.

This skill helps create professional research posters using HTML/CSS that can be exported to PDF or converted to PowerPoint format. It includes comprehensive templates, design guidelines, and quality checklists for academic conference presentations, with emphasis on integrating AI-generated visual elements.

This skill creates professional 50+ page market research reports modeled after McKinsey and BCG deliverables. It includes automated generation of business diagrams (Porter's Five Forces, TAM/SAM/SOM, competitive matrices), LaTeX formatting with custom styling, and multi-framework strategic analysis including SWOT and PESTLE.

This skill creates publication-ready clinical decision support documents for pharmaceutical research and medical guideline development. It generates patient cohort analyses with biomarker stratification, evidence-based treatment recommendations using GRADE methodology, and includes statistical analysis tools for survival curves, hazard ratios, and clinical outcome comparisons.

A comprehensive citation management skill for academic research that can search Google Scholar and PubMed for papers, extract accurate metadata from DOIs/PMIDs/arXiv IDs, validate existing citations, and generate properly formatted BibTeX entries. It includes tools for cleaning, deduplicating, and organizing bibliographies.

This skill guides users through statistical hypothesis testing (t-tests, ANOVA, chi-square, regression) with proper assumption checking, effect size calculation, and APA-formatted reporting. It includes Python utilities for diagnostic visualizations and comprehensive reference documentation covering Bayesian methods, power analysis, and test selection.

This skill helps write scientific manuscripts following IMRAD structure with proper citations (APA/AMA/Vancouver), figures, tables, and reporting guidelines (CONSORT/STROBE/PRISMA). It includes extensive documentation for professional scientific writing and LaTeX templates for report formatting.

A comprehensive scientific critical thinking skill that helps evaluate research methodology, identify biases, assess statistical validity, and grade evidence quality. It provides frameworks like GRADE and Cochrane Risk of Bias for systematic evaluation of scientific claims and includes extensive reference materials on experimental design, logical fallacies, and common statistical pitfalls.

A research ideation partner skill that helps scientists generate novel hypotheses, explore interdisciplinary connections, and develop new methodological approaches through structured brainstorming techniques like SCAMPER, Six Thinking Hats, and biomimicry.

A comprehensive peer review skill for evaluating scientific manuscripts, grant proposals, and presentations. It provides systematic workflows for assessing methodology, statistics, reproducibility, ethics, and compliance with reporting standards like CONSORT, STROBE, and PRISMA.

This skill provides comprehensive documentation and guidance for using datamol, a Python library that simplifies molecular cheminformatics tasks. It covers SMILES parsing, molecular descriptors, fingerprints, clustering, 3D conformer generation, visualization, and chemical reactions with sensible defaults built on top of RDKit.

A comprehensive literature review tool that searches multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar), synthesizes findings thematically, verifies all citations through CrossRef API, and generates professional markdown and PDF outputs with proper academic formatting and citation styles.

A scientific methodology skill that helps formulate testable hypotheses from observations. It conducts literature searches via PubMed and web sources, generates competing hypotheses with evidence, designs experimental tests, and produces professional LaTeX reports with colored boxes and comprehensive appendices.

Provides comprehensive API access to the ZINC database, a UCSF-maintained repository of 230M+ purchasable chemical compounds. Supports searching by ZINC ID or SMILES notation, similarity searches, random sampling, and downloading 3D structures for molecular docking studies in drug discovery workflows.

This skill enables access to USPTO patent and trademark data through official APIs. It includes Python clients for patent search, examination history (PEDS), trademark status (TSDR), and assignment tracking, supporting IP analysis and prior art research.

This skill enables direct access to UniProt, the world's leading protein sequence database. It allows searching for proteins by name, gene, or organism, retrieving sequences in FASTA format, and mapping identifiers between UniProt and other biological databases like PDB, Ensembl, and RefSeq.

This skill enables querying the STRING database for protein-protein interaction networks, functional enrichment analysis (GO, KEGG, Pfam), and homology comparisons. It covers 59 million proteins across 5000+ species and supports workflows like network visualization, pathway analysis, and hub protein discovery.