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AWS SAM and AWS CDK deployment for serverless applications. Triggers on phrases like: use SAM, SAM template, SAM init, SAM deploy, CDK serverless, CDK Lambda construct, NodejsFunction, PythonFunction, SAM and CDK together, serverless CI/CD pipeline. For general app deployment with service selection, use deploy-on-aws plugin instead.
Computational analysis of the knowledge base via code execution in a sandboxed Python interpreter. Use for questions requiring counting, aggregation, statistics, data traversal, comparison across documents, or any task best answered by writing Python code. Examples: "how many pages?", "compare table 3 across documents", "calculate average word count", "extract all email addresses".
Invoke IMMEDIATELY via python script to stress-test decisions and reasoning. Do NOT analyze first - the script orchestrates the critique workflow.
Invoke IMMEDIATELY via python script when user requests prompt optimization. Do NOT analyze first - invoke this skill immediately.
Invoke IMMEDIATELY via python script when user has a defined problem or root cause and needs solution options. Generates diverse solutions from multiple reasoning perspectives. Do NOT explore first - the script orchestrates the solution generation workflow.
Invoke IMMEDIATELY via python script when user requests problem analysis or root cause investigation. Do NOT explore first - the script orchestrates the investigation.
Guidelines for robot Python projects — api/, robot-server/, hardware/, auth-server/, shared-data/, server-utils/, system-server/, update-server/, usb-bridge/, g-code-testing/. Use when working with Python files in these directories or their pyproject.toml files.
Conventions for static deploy automation Python CLIs in scripts/static-deploy/. Use when working with deployment scripts, AWS S3/CloudFront automation, or Python CLIs in the static-deploy directory.
Authoring and styling guidelines for the Opentrons /docs MkDocs project. Covers file conventions, frontmatter, page titles, header IDs, image formats, tables, code blocks, Python API reference (mkdocstrings, autorefs, macros), and CSS patterns (parts lists, screenshots, icons, instruction lists, side-by-side figures, fonts, colors). Use when writing, editing, or reviewing any file in the docs/ directory, or when the user asks about MkDocs conventions, docstrings, CSS classes, or the Python API reference.
Create valid Opentrons Python API protocols for OT-2 and Flex robots. Use when creating, writing, editing, or helping with protocol files, liquid handling automation, or Opentrons protocol development. Also use when debugging protocol errors to trace into API source code.
Guide for writing unit tests. Use this when creating tests to verify Python logic.
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.
How to use the PyMAPDL command-line interface to start, stop, list, and execute commands on MAPDL instances from a terminal. Use this skill whenever the user wants to control MAPDL from the command line, run APDL commands via the shell, manage running MAPDL processes, script MAPDL workflows without writing Python, or pipe APDL into a running solver — even if they don't explicitly say "CLI".
Python code style and formatting standards using Ruff. Use when writing or reviewing Python code.
Visualize metagenomic profiles using R (phyloseq, microbiome) and Python (matplotlib, seaborn). Create stacked bar plots, heatmaps, PCA plots, and diversity analyses. Use when creating publication-quality figures from MetaPhlAn, Bracken, or other taxonomic profiling output.
Statistical testing for differentially abundant proteins between conditions. Covers preprocessing (log2 transformation, normalization), limma and DEqMS workflows with empirical Bayes moderation, fold change shrinkage for accurate effect size estimation, and Python alternatives. Use when identifying proteins with significant abundance changes between experimental groups.
Build reproducible scientific documents, presentations, and websites with Quarto supporting R, Python, Julia, and Observable JS. Use when creating reproducible reports with Quarto.
Build reproducible bioinformatics pipelines with Snakemake using rules, wildcards, and automatic dependency resolution. Use when creating Python-based workflows, automating multi-step analyses with make-like dependency tracking, or running pipelines on HPC clusters with SLURM.
Search NCBI databases using Biopython Bio.Entrez. Use when finding records by keyword, building complex search queries, discovering database structure, or getting global query counts across databases.
