K-Dense

Build and simulate quantum circuits in Python with Cirq. Compare noise effects, test parameter values, transform circuits for hardware constraints, and prepare experiments for Google Quantum AI or supported providers when the required access is available.

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• Building and simulating quantum circuits
• Comparing measurement results at different noise levels
• Testing circuits across a range of parameter values

Explore difficult decisions, research trade-offs, or creative challenges through several simulated perspectives. Separate facts, assumptions, and values, compare competing priorities, and produce a conditional recommendation with unresolved questions, a next step, and conditions that would change the choice.

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• Comparing business options with competing priorities
• Reviewing trade-offs in a research plan
• Challenging assumptions behind a preferred choice

Process DNA, RNA, and protein sequences with Biopython, convert biological files, and retrieve NCBI records. Supports batch workflows for sequence comparison, searches for similar sequences, protein structure analysis, and evolutionary trees.

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• Convert GenBank files to FASTA
• Calculate sequence length and GC content in batches
• Retrieve sequences and publication records from NCBI

Analyze flow cytometry data in Python by correcting fluorescence spillover and applying gates that select cell populations. Produce population counts, percentages, and fluorescence summaries, or reproduce supported FlowJo 10 workspace analyses with recorded analysis settings.

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• Applying the same gating strategy to multiple FCS samples
• Reporting cell-population counts and percentages with denominators
• Reproducing supported FlowJo 10 analyses in Python

Investigate how DNA variants may affect gene activity using precomputed AlphaGenome Atlas results and model predictions. Rank candidate variants, examine tissue-specific effects, and inspect the features behind scores to develop research hypotheses about biological mechanisms.

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• Ranking candidate variants from a VCF
• Examining tissue-specific effects on gene activity
• Comparing reference and altered DNA predictions

Search scientific and technical topics with Exa, prioritize scholarly sources using publication and domain filters, and extract text from webpages or PDFs in batches to collect material for research.

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• Find papers and primary sources on a research topic
• Search within academic and institutional websites
• Extract article and PDF text from multiple URLs

Use hosted DNA models to predict gene structures, expression levels, and regions that regulate gene activity. Start from a gene symbol, genomic coordinates, or a DNA sequence, without installing model weights or running a local GPU.

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• Finding promoter regions in a DNA sequence
• Predicting splice donor and acceptor sites
• Estimating gene expression for a specified cell type

Prepare and check research documents for clinical decision-support evaluation, including evidence profiles, cohort tables, survival plans, and model assessments. Work with aggregate or synthetic inputs, record sources and review status, and keep outputs outside patient care.

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• Preparing research model evaluation documents
• Checking evidence profiles and source links
• Reviewing survival analysis plans

Use Dask to process tables, numerical arrays, and file collections in pieces across CPU cores or machines. Helps choose data structures, size memory-friendly chunks, coordinate dependent tasks, and diagnose slow or memory-heavy workflows.

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• Aggregate CSV or Parquet files that exceed available memory
• Process large scientific arrays in chunks
• Clean JSON records and logs before analysis

Create and audit editable scientific posters in macro-free PowerPoint (.pptx) from author-approved local content and assets. Use when the requested deliverable is a PowerPoint research/conference poster and exact physical, printer, accessibility, provenance, and package-security checks are required.

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Convert heterogeneous documents and selected URIs to Markdown with Microsoft MarkItDown for text analysis, search, and LLM/RAG ingestion. Covers safe local conversion, streams, Office/PDF/data formats, batch workflows, plugins, vision OCR, Azure extraction, and the official MCP server.

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Use this skill any time a .pptx or .potx file is involved in any way — as input, output, or both. This includes: creating slide decks, pitch decks, or presentations; reading, parsing, or extracting text from any .pptx or .potx file (even if the extracted content will be used elsewhere, like in an email or summary); editing, modifying, or updating existing presentations; combining or splitting slide files; working with templates (.potx), layouts, speaker notes, or comments. Trigger whenever the user mentions "deck," "slides," "presentation," or references a .pptx or .potx filename, regardless of what they plan to do with the content afterward. If a .pptx or .potx file needs to be opened, created, or touched, use this skill.

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Comprehensive citation management for academic research. Search OpenAlex, PubMed, and Google Scholar for papers, extract accurate metadata, validate citations, and generate properly formatted BibTeX entries. This skill should be used when you need to find papers, verify citation information, convert DOIs to BibTeX, or ensure reference accuracy in scientific writing.

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Create publication-quality scientific diagrams using Nano Banana 2 AI with smart iterative refinement. Uses Gemini 3.6 Flash for quality review. Only regenerates if quality is below threshold for your document type. Specialized in neural network architectures, system diagrams, flowcharts, biological pathways, and complex scientific visualizations.

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Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.). This skill should be used when conducting systematic literature reviews, meta-analyses, research synthesis, or comprehensive literature searches across biomedical, scientific, and technical domains. Creates professionally formatted markdown documents and PDFs with verified citations in multiple citation styles (APA, Nature, Vancouver, etc.).

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Build evidence-traceable market research reports and assumption-driven market sizing or forecast scenarios. Use for market definition, industry and customer evidence, competitive landscapes, TAM/SAM/SOM reconciliation, forecast sensitivity, and auditable report scaffolds.

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Create professional research posters in LaTeX using beamerposter, tikzposter, or baposter. Support for conference presentations, academic posters, and scientific communication. Includes layout design, color schemes, multi-column formats, figure integration, and poster-specific best practices for visual communication.

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Use this skill whenever the user wants to do anything with PDF files. This includes reading or extracting text/tables from PDFs, combining or merging multiple PDFs into one, splitting PDFs apart, rotating pages, adding watermarks, creating new PDFs, filling PDF forms, encrypting/decrypting PDFs, extracting images, and OCR on scanned PDFs to make them searchable. If the user mentions a .pdf file or asks to produce one, use this skill.

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Formulate evidence-bounded scientific questions, candidate hypotheses, rival explanations, causal or associational claims, discriminating predictions, measurements, and preregistration-ready analysis plans. Use when turning observations or preliminary findings into transparent, testable research plans without treating hypotheses as facts.

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Draft, revise, and audit scientific manuscripts or reports with explicit evidence provenance, reporting-guideline coverage, authorship accountability, confidentiality controls, and local consistency checks. Use for manuscript sections, references, declarations, tables, figures, or submission preparation when scientific accuracy and traceability matter.

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Create professional infographics using Nano Banana Pro AI with smart iterative refinement. Uses Gemini 3.6 Flash for quality review. Integrates research-lookup and web search for accurate data. Supports 10 infographic types, 8 industry styles, and colorblind-safe palettes.

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Write competitive research proposals for NSF, NIH, DOE, DARPA, and Taiwan NSTC. Agency-specific formatting, review criteria, budget preparation, broader impacts, significance statements, innovation narratives, and compliance with submission requirements.

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Prepare and validate research-only clinical decision-support evaluation, evidence-profile, cohort, survival, biomarker/model, privacy, and governance artifacts. Use for aggregate or synthetic research documentation and traceability—not patient care or live clinical operation.

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Use this skill whenever the user wants to create, read, edit, or manipulate Word documents (.docx files) or Word templates (.dotx files). Triggers include: any mention of 'Word doc', 'word document', '.docx', '.dotx', or requests to produce professional documents with formatting like tables of contents, headings, page numbers, or letterheads. Also use when extracting or reorganizing content from .docx or .dotx files, inserting or replacing images in documents, performing find-and-replace in Word files, working with tracked changes or comments, or converting content into a polished Word document. If the user asks for a 'report', 'memo', 'letter', 'template', or similar deliverable as a Word or .docx file, use this skill. Do NOT use for PDFs, spreadsheets, Google Docs, or general coding tasks unrelated to document generation.

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