Search Results for "jimmc414" | AgentCC

clinical-reports

Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full support with templates, regulatory compliance (HIPAA, FDA, ICH-GCP), and validation tools.

scientific-writing

Write scientific manuscripts. IMRAD structure, citations (APA/AMA/Vancouver), figures/tables, reporting guidelines (CONSORT/STROBE/PRISMA), abstracts, for research papers and journal submissions.

research-grants

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

reportlab

PDF generation toolkit. Create invoices, reports, certificates, forms, charts, tables, barcodes, QR codes, Canvas/Platypus APIs, for professional document automation.

tooluniverse

Use this skill when working with scientific research tools and workflows across bioinformatics, cheminformatics, genomics, structural biology, proteomics, and drug discovery. This skill provides access to 600+ scientific tools including machine learning models, datasets, APIs, and analysis packages. Use when searching for scientific tools, executing computational biology workflows, composing multi-step research pipelines, accessing databases like OpenTargets/PubChem/UniProt/PDB/ChEMBL, performing tool discovery for research tasks, or integrating scientific computational resources into LLM workflows.

venue-templates

Access comprehensive LaTeX templates, formatting requirements, and submission guidelines for major scientific publication venues (Nature, Science, PLOS, IEEE, ACM), academic conferences (NeurIPS, ICML, CVPR, CHI), research posters, and grant proposals (NSF, NIH, DOE, DARPA). This skill should be used when preparing manuscripts for journal submission, conference papers, research posters, or grant proposals and need venue-specific formatting requirements and templates.

scientific-slides

Build slide decks and presentations for research talks. Use this for making PowerPoint slides, conference presentations, seminar talks, research presentations, thesis defense slides, or any scientific talk. Provides slide structure, design templates, timing guidance, and visual validation. Works with PowerPoint and LaTeX Beamer.

docx

Document toolkit (.docx). Create/edit documents, tracked changes, comments, formatting preservation, text extraction, for professional document processing.

research-lookup

Look up current research information using Perplexity's Sonar Pro or Sonar Reasoning Pro models through OpenRouter. Automatically selects the best model based on query complexity. Search academic papers, recent studies, technical documentation, and general research information with citations.

scholar-evaluation

Systematic framework for evaluating scholarly and research work based on the ScholarEval methodology. This skill should be used when assessing research papers, evaluating literature reviews, scoring research methodologies, analyzing scientific writing quality, or applying structured evaluation criteria to academic work. Provides comprehensive assessment across multiple dimensions including problem formulation, literature review, methodology, data collection, analysis, results interpretation, and scholarly writing quality.

hypothesis-generation

Generate testable hypotheses. Formulate from observations, design experiments, explore competing explanations, develop predictions, propose mechanisms, for scientific inquiry across domains.

literature-review

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.).

latex-posters

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.

treatment-plans

Generate concise (3-4 page), focused medical treatment plans in LaTeX/PDF format for all clinical specialties. Supports general medical treatment, rehabilitation therapy, mental health care, chronic disease management, perioperative care, and pain management. Includes SMART goal frameworks, evidence-based interventions with minimal text citations, regulatory compliance (HIPAA), and professional formatting. Prioritizes brevity and clinical actionability.

paper-2-web

This skill should be used when converting academic papers into promotional and presentation formats including interactive websites (Paper2Web), presentation videos (Paper2Video), and conference posters (Paper2Poster). Use this skill for tasks involving paper dissemination, conference preparation, creating explorable academic homepages, generating video abstracts, or producing print-ready posters from LaTeX or PDF sources.

citation-management

Comprehensive citation management for academic research. Search Google Scholar and PubMed 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.

pdf

PDF manipulation toolkit. Extract text/tables, create PDFs, merge/split, fill forms, for programmatic document processing and analysis.

xlsx

Spreadsheet toolkit (.xlsx/.csv). Create/edit with formulas/formatting, analyze data, visualization, recalculate formulas, for spreadsheet processing and analysis.

scientific-critical-thinking

Evaluate research rigor. Assess methodology, experimental design, statistical validity, biases, confounding, evidence quality (GRADE, Cochrane ROB), for critical analysis of scientific claims.

clinical-decision-support

Generate professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings, including patient cohort analyses (biomarker-stratified with outcomes) and treatment recommendation reports (evidence-based guidelines with decision algorithms). Supports GRADE evidence grading, statistical analysis (hazard ratios, survival curves, waterfall plots), biomarker integration, and regulatory compliance. Outputs publication-ready LaTeX/PDF format optimized for drug development, clinical research, and evidence synthesis.

scientific-schematics

Create publication-quality scientific diagrams, flowcharts, and schematics using Python (graphviz, matplotlib, schemdraw, networkx). Specialized in neural network architectures, system diagrams, and flowcharts. Generates SVG/EPS in figures/ folder with automated quality verification.

pptx

Presentation toolkit (.pptx). Create/edit slides, layouts, content, speaker notes, comments, for programmatic presentation creation and modification.

markitdown

Convert various file formats (PDF, Office documents, images, audio, web content, structured data) to Markdown optimized for LLM processing. Use when converting documents to markdown, extracting text from PDFs/Office files, transcribing audio, performing OCR on images, extracting YouTube transcripts, or processing batches of files. Supports 20+ formats including DOCX, XLSX, PPTX, PDF, HTML, EPUB, CSV, JSON, images with OCR, and audio with transcription.

peer-review

Systematic peer review toolkit. Evaluate methodology, statistics, design, reproducibility, ethics, figure integrity, reporting standards, for manuscript and grant review across disciplines.

compose-small-helpers

For complex behavior: build from tiny functions, chain transformations, make code read like a pipeline of operations.

display-grid-state

For 2D debugging: visualize grid/board state, show puzzle progress, make algorithm behavior visible.

apply-decorator-wrap

For cross-cutting concerns: add behavior without modifying functions, caching, timing, logging, validation wrappers.

use-sparse-set

For sparse data: infinite grids, large spaces with few active elements, membership testing, set operations on coordinates or states.

use-comprehension-chain

For data transformation: list/dict/set comprehensions, chained filtering and mapping, creating lookup structures concisely.

handle-edge-cases

For boundary conditions: empty collections, zero values, recursive base cases, null checks, prevent crashes at edges.

adversarial-analysis

Analyze code to identify explicit contracts, implicit usage patterns, and realistic boundary conditions. Contains concrete formulas for calculating input realism limits. Use before generating adversarial tests.

validate-before-process

For input validation: check format and constraints before processing, fail fast with clear errors, defensive parsing.

propagate-then-search

For constraint problems: eliminate impossibilities before guessing, reduce search space through inference, fail fast on contradictions.

parallel-worker

Execute focused implementation tasks in a parallel workflow. Use when: working on assigned files in a worktree, making checkpoint commits, signaling dependencies or blockers, completing orchestrator-assigned tasks. Triggers: worker, checkpoint, worktree, assigned scope, commit prefix, parallel task.

time-and-report

For performance reporting: timing wrappers, throughput calculations, profiling summaries.

count-combinations

For probability and counting: permutations, combinations, sample spaces, Monte Carlo simulation, brute-force enumeration, card/dice problems.

find-convex-hull

For computational geometry: convex hull, point enclosure, polygon operations. Uses monotone chain algorithm with stack-based turn detection.

capture-state-closure

For persistent state: closures capture outer variables, alternative to classes for simple state, factory functions that remember context.

test-structural-invariants

For data structure validation: test lengths, relationships, constraints that must hold, verify setup is correct.

adversarial-patterns

Library of realistic adversarial attack vectors and anti-patterns to avoid. Contains examples of valid attacks and subtle gaming patterns to reject.

parallel-retrospective

Analyze completed parallel workflows for lessons learned. Use when: reviewing workflow execution quality, identifying process improvements, evaluating skill effectiveness, post-mortem analysis after parallel work, assessing planning accuracy. Triggers: retrospective, review, post-mortem, lessons learned, workflow analysis, evaluate parallel, workflow quality, planning assessment.

use-defaultdict-groups

For grouping and auto-initialization: adjacency lists, grouping by key, multi-maps, nested structures without KeyError handling.

solve-grid-maze

For 2D grid problems: mazes, board games, tile maps, pixel grids, coordinate systems, cellular automata, flood fill. Uses dict-based Grid class pattern.

frontier-based-explore

For graph exploration: frontier collection with configurable pop order, BFS/DFS/random via strategy change.

use-operator-module

For functional operations: named functions for operators, cleaner than lambdas for arithmetic, building interpreter environments.

precompute-relationships

For static relationships: graph structure, grid neighbors, constraint peers. Calculate once at module load, reference throughout program.

catch-expected-errors

For iteration with errors: catch exceptions during exploration, skip invalid cases, continue to next attempt.

build-expression-tree

For symbolic computation: ASTs, mathematical expressions, code that manipulates code structure, expression transformations.