Use Bio.PDB to parse and analyze protein structures (PDB/mmCIF) for structural bioinformatics tasks; use when you need structure parsing, geometry calculations, or structural comparison/superposition.

Scan, prioritize, and report technical debt. Usage: /tech-debt <scan|prioritize|report> [options]

Use Biopython to read/write/convert biological sequence files (FASTA/GenBank/FASTQ, etc.) and perform basic sequence operations; use when you need reliable sequence I/O, lightweight sequence manipulation, or scalable processing of large sequence datasets.

Scan codebases for technical debt, score severity, track trends, and generate prioritized remediation plans. Use when users mention tech debt, code quality, refactoring priority, debt scoring, cleanup sprints, or code health assessment. Also use for legacy code modernization planning and maintenance cost estimation.

Use Bio.Phylo to read/write phylogenetic trees and perform visualization and statistics; use when tree parsing/conversion, pruning/rerooting, distance calculation, or plotting is required.

Write internal company communications — 3P updates (Progress/Plans/Problems), company-wide newsletters, FAQ roundups, incident reports, leadership updates, status reports, project updates, and general internal comms. Use this skill any time the user asks to draft, edit, or format something meant for internal audiences. Trigger on keywords like "3P", "weekly update", "newsletter", "FAQ", "internal comms", "status report", "company update", "team update", "incident report", or any request to summarize work for leadership, teammates, or the broader company. Even casual requests like "write my update" or "summarize what my team did this week" should trigger this skill.

Run a red-green-refactor TDD workflow — generate failing tests first, implement to green, then check coverage gaps. Usage: /tdd <generate|coverage|validate> [target]

Sequence alignment and alignment file processing with Biopython (Bio.Align/Bio.AlignIO), triggered when you need global/local pairwise alignment, MSA read/write/format conversion, or alignment statistics/filtering.

Advanced Biopython modules for motifs, population genetics, sequence utilities, restriction analysis, clustering, and GenomeDiagram visualization; use when you need extended bioinformatics analysis beyond basic sequence I/O and alignment.

Track technical changes with structured records, a state machine, and session handoff. Usage: /tc <init|create|update|status|resume|close|export|dashboard> [args]

Use when the user asks to track technical changes, create change records, manage TC lifecycles, or hand off work between AI sessions. Covers init/create/update/status/resume/close/export workflows for structured code change documentation.

Generates a curated supplementary reading list from any course syllabus using Consensus academic search. Grill-me intake (syllabus input format + course audience + year range) plus a grouping forcing-options checkpoint before any search runs — so the reading list matches the course's level and recency need. Parses the syllabus to extract topics and learning outcomes, searches Consensus for recent peer-reviewed papers per topic, and produces a professionally formatted .docx with clickable Consensus links, plain-language summaries calibrated to audience level, and Bloom-higher-order discussion questions tied to course learning goals. Use when the user uploads a syllabus, course outline, or curriculum document and wants supplementary readings (e.g., 'create a reading list from this syllabus', 'find recent papers for my course') — even casual mentions with a syllabus attached should trigger this skill.

Mentor Swedish language learners by selecting YouTube video clips and podcast episodes by CEFR level and skill (listening, reading, writing, speaking), and building a simple learning path. Use when the user asks about a Swedish learning path, YouTube clips or podcasts for Swedish, SFI videos, level assessment for svenska, or requests for Peter SFI / Lätt Svenska med Oskar / Radio Sweden på lätt svenska / Klartext-style recommendations.

Detect and correct for horizontal pleiotropy in Mendelian randomization analyses using MR-PRESSO for outlier removal, MR-Egger regression for directional pleiotropy, and Steiger filtering for variant directionality. Use when validating MR results, detecting pleiotropic instrum...

Production-grade Stripe integrations: subscriptions with trials and proration, one-time payments, usage-based billing, checkout sessions, idempotent webhook handlers, customer portal, and invoicing. Covers Next.js, Express, and Django patterns. Use when integrating Stripe for the first time, debugging webhook reliability issues, migrating from a different payment provider, or adding usage-based billing to an existing subscription product.

Decompose genetic effects into direct and indirect paths through mediating variables using the mediation R package. Tests whether gene expression, methylation, or other molecular phenotypes mediate the effect of genetic variants on disease. Use when testing whether a molecular...

Use when the user says 'no hallucinations', 'verify APIs', 'reality check', or 'don't invent functions'. Prevents the agent from calling methods, imports, or variables that do not provably exist in the user's installed version.

/em:stress-test — Business assumption stress testing. Use before betting on a plan whose core assumptions are unvalidated — e.g. stress-testing 'enterprise buyers will tolerate a 6-month pilot' or a hockey-stick revenue model.

Extracts clinical trial baseline data (study, region, participants, etc.) from article text or PMID. Checks PubMed for metadata; always falls back to LLM extraction for full details.

Cascades strategy from boardroom to individual contributor. Detects and fixes misalignment between company goals and team execution. Covers strategy articulation, cascade mapping, orphan goal detection, silo identification, communication gap analysis, and realignment protocols. Use when teams are pulling in different directions, OKRs don't connect, departments optimize locally at company expense, or when user mentions alignment, strategy cascade, silo, conflicting OKRs, or strategy communication.