dangeles
@dangeles
Public Skills
cfd-bioreactor
by dangeles
Use when user needs to simulate fluid flow through bioprocess cartridges, bioreactor geometries, or membrane devices using FEniCSx. Covers Navier-Stokes flow, O2 species transport with Michaelis-Menten kinetics, membrane permeation, mesh generation from CAD geometry, and interactive 3D visualization.
brainstorming-pm
by dangeles
Use when orchestrating multi-perspective brainstorming sessions requiring parallel agent execution, confidence-weighted synthesis, and optional workflow handoff. Coordinates 5 parallel perspective agents through a 4-stage pipeline (framing, diverging, converging, output).
consistency-auditor
by dangeles
Use when parameter values appear in multiple documents and consistency must be verified, especially for quantitative values that may differ due to measurement context or require reconciliation
economist
by dangeles
Use when order-of-magnitude cost estimates are needed to assess financial feasibility, compare cost-effectiveness of alternatives, or identify major cost drivers (not for detailed quotes—that's Procurement)
research-pipeline
by dangeles
Use when you need a complete research workflow from initial literature search to polished, fact-checked document. Chains researcher -> synthesizer -> devils-advocate -> fact-checker -> editor automatically.
parallel-coordinator
by dangeles
Orchestrate multiple independent agents running simultaneously, leveraging Claude's parallel tool execution capabilities to maximize throughput on multi-task requests.
procurement
by dangeles
Use when equipment specifications need matching to potential vendors, sourcing landscape must be mapped (catalog items vs. custom orders), or lead time considerations affect project planning
program-officer
by dangeles
Use when coordinating complex research tasks requiring literature synthesis, quantitative validation, or multi-source integration across researcher, calculator, synthesizer, and fact-checker skills
programming-pm
by dangeles
Use when coordinating software development projects requiring multiple specialists (architect, developers, mathematician, statistician, notebook-writer) with quality gates for archival setup, requirements, architecture, pre-mortem, code review, testing, and version control integration.
scientific-analysis-architect
by dangeles
Use when planning multi-chapter scientific research analyses with expert consultation. Produces markdown analysis documents with pseudocode for RNA-seq, proteomics, or other data analysis workflows. Triggers on research planning, analysis architecture, or multi-chapter analysis design requests.
strategist
by dangeles
Use when research direction needs assessment, critical knowledge gaps must be identified, or priorities must be recommended based on impact, dependencies, and effort (especially at project milestones or when scope questions arise)
copilot
by dangeles
Use when reviewing code for correctness, efficiency, edge cases, or potential bugs in an adversarial but collaborative manner, or when bioinformatician/developer needs a second opinion.
principal-investigator
by dangeles
Direct research projects by gathering team feedback and delegating implementation tasks. Writes publication-quality scientific text and coordinates bioinformaticians, software developers, and biologist commentators via technical-pm.
bioinformatician
by dangeles
Use when implementing data analysis pipelines, statistical tests, or bioinformatics workflows in code (Python/R), particularly for genomics, transcriptomics, proteomics, or other -omics data.
skill-editor
by dangeles
Use when creating, modifying, or refactoring Claude Code skills that require structured multi-agent review and quality validation
notebook-debugger
by dangeles
Use when encountering Jupyter notebook errors including kernel crashes, environment conflicts, import errors, memory issues, or data pipeline failures in notebooks
notebook-writer
by dangeles
Create and document Jupyter notebooks for reproducible analyses
systems-architect
by dangeles
Use when designing software architecture for bioinformatics pipelines, defining data structures, planning scalability, or making technical design decisions for complex systems.
cfd-mathematician
by dangeles
Use when invoked by cfd-bioreactor orchestrator to provide rigorous mathematical analysis of FEM variational formulations, function space selection, stability conditions (inf-sup, Lax-Milgram), convergence rate estimation, and dimensionless number analysis for bioreactor CFD simulations. Produces mathematical specifications that the orchestrator translates into FEniCSx code.
cfd-reviewer
by dangeles
Use when invoked by cfd-bioreactor orchestrator to provide adversarial engineering review of CFD simulation plans and generated code. Challenges mesh quality, boundary conditions, solver parameters, stabilization choices, and physical plausibility. Produces severity-rated review with approval status.
latex-document-manager
by dangeles
Use when user asks to examine, edit, proofread, or compile LaTeX documents. Triggers on mentions of .tex files, pdflatex, xelatex, lualatex, latexmk, bibtex, biblatex, CV updates, or LaTeX paper editing on macOS.
essay-fact-checker
by dangeles
Use when factual claims in a science blog essay need verification with source URLs, or when proactive research enrichment would strengthen an argument.
essay-pipeline
by dangeles
Use when collaboratively writing a science blog essay through interactive thesis development, essay structuring, argument development, and paragraph writing with tiered fact-checking and voice matching.
essay-voice-matcher
by dangeles
Use when written text needs evaluation against a user's writing style profile and sample essays for voice consistency during essay pipeline execution.
git-strategy-advisor
by dangeles
Use when deciding git workflow strategy for planned or completed work. Recommends branch creation vs direct commit, branch naming, push timing, and PR creation based on change scope and type.
lit-pm
by dangeles
Use when coordinating comprehensive literature reviews requiring multi-stage pipeline (archival setup, scope refinement, parallel review discovery, outline synthesis, section writing, fact-checking, editorial polish). Orchestrates literature-researcher, lit-synthesizer, fact-checker, and editor skills with adaptive checkpoints based on complexity and stakes.
junior-developer
by dangeles
Use when implementing well-scoped Python tasks with clear requirements, writing unit tests, and producing documented code for senior-developer review.
senior-developer
by dangeles
Use when implementing production-quality Python code within an assigned scope, including architecture decisions at component level, comprehensive testing, and code review of junior-developer outputs.
archive-workflow
by dangeles
Use when organizing projects - detecting clutter, enforcing naming conventions, structuring directories, managing gitignore, or assessing project expandability. Triggers on project organization requests, file naming audits, or gitignore maintenance needs.
ai-strategist
by dangeles
Use when evaluating AI tools and agentic workflows against workflow gaps, when conducting quarterly landscape scans, or when assessing integration feasibility of new tools for startup workflows.
perspective-swarm
by dangeles
Protocol specification for multi-perspective brainstorming via 5 parallel agents with confidence-weighted synthesis. Executed by brainstorming-pm orchestrator.
software-developer
by dangeles
Use when implementing production-quality bioinformatics software with proper error handling, logging, testing, and documentation, following software engineering best practices.
literature-researcher
by dangeles
Specialized literature review skill with review discovery, deep targeted research (15-30 papers per section), recency surveys, and convergence tracking for comprehensive literature reviews
editor
by dangeles
Use when documents need prose improvement, CLAUDE.md style enforcement (prose over bullets, bridging transitions, complete sentences), or final polish before archival
researcher
by dangeles
Use when comprehensive literature research is needed, especially when quantitative parameters must be sourced from primary literature with proper citations and context (species, measurement methods, culture conditions)
synthesizer
by dangeles
Use when multiple reviews or paper notes need integration, cross-cutting themes must be identified, or project-specific implications must be drawn from disparate sources
fact-checker
by dangeles
Use when documents with quantitative claims need citation verification, especially when every number must trace to a specific inline superscript citation before publication
lit-synthesizer
by dangeles
Senior scientific author for literature review synthesis with authority to restructure, rewrite, and add analysis across outline creation, introduction framing, and final synthesis
pov-expansion
by dangeles
Use when seeking analogous solutions from other domains, when stuck on a problem and need fresh perspectives, or when evaluating whether approaches from field X might apply to field Y. Requires structured problem statement.
mathematician
by dangeles
Use when designing algorithms, analyzing complexity, selecting numerical methods, or verifying mathematical correctness for software implementations.
statistician
by dangeles
Use when selecting statistical methods, performing power analysis, guiding uncertainty quantification, or validating MCMC/Monte Carlo implementations.
requirements-analyst
by dangeles
Use when requirements are vague, scope undefined, or success criteria unclear
edge-case-analyst
by dangeles
Use when planning new features or changes to identify failure scenarios before implementation
completion-verifier
by dangeles
Verification system that ensures tasks are truly complete before marking them done, preventing premature completion claims through systematic checklist validation
calculator
by dangeles
Use when quantitative feasibility checks are needed, order-of-magnitude estimates must be established, or detailed models are required to validate design assumptions and identify rate-limiting steps
data-pipeline-manager
by dangeles
Design and troubleshoot robust data pipelines with comprehensive quality validation, error handling, and monitoring capabilities for bioinformatics and data processing workflows
devils-advocate
by dangeles
Use when substantive documents (reviews, analyses, synthesis documents) need adversarial review to strengthen arguments, identify weak points, and challenge assumptions before editorial polish (mandatory for Writer → Devil's Advocate pairing protocol)
biologist-commentator
by dangeles
Use when evaluating biological relevance, methodological appropriateness, or scientific validity of bioinformatics approaches, or when choosing between analysis methods/software tools.
experimental-planner
by dangeles
Use when theoretical calculations need experimental validation, protocols must be designed with clear hypotheses and success criteria, or resource requirements (equipment, materials, expertise) must be estimated for proposed experiments
systematic-troubleshooter
by dangeles
Use when encountering errors, bugs, unexpected behavior, or any problem requiring systematic debugging with extended thinking for complex multi-layer issues