research▌

### Umap Learn - name: "umap-learn" - description: "UMAP dimensionality reduction. Fast nonlinear manifold learning for 2D/3D visualization, clustering preprocessing (HDBSCAN), supervised/parametric UMAP, for high-dimensional data."

### Scikit Bio - name: "scikit-bio" - description: "Biological data toolkit. Sequence analysis, alignments, phylogenetic trees, diversity metrics (alpha/beta, UniFrac), ordination (PCoA), PERMANOVA, FASTA/Newick I/O, for microbiome analysis." - allowed-tools: "Read Write Edit Bash"

### Scientific Writing - name: "scientific-writing" - description: "Core skill for the deep research and writing tool. Write scientific manuscripts in full paragraphs (never bullet points). Use two-stage process with (1) section outlines with key points using research..." - allowed-tools: "Read Write Edit Bash"

### Statsmodels - name: "statsmodels" - description: "Statistical models library for Python. Use when you need specific model classes (OLS, GLM, mixed models, ARIMA) with detailed diagnostics, residuals, and inference. Best for econometrics, time series,..."

### Tiledbvcf - name: "tiledbvcf" - description: "Efficient storage and retrieval of genomic variant data using TileDB. Scalable VCF/BCF ingestion, incremental sample addition, compressed storage, parallel queries, and export capabilities for populat..."

### Sympy - name: "sympy" - description: "Use when you need exact symbolic math in Python — algebra, calculus, equation solving, symbolic linear algebra, or code generation via lambdify/LaTeX. Prefer NumPy or SciPy when floating-point approxi..." - allowed-tools: "Read Write Edit Bash"

### Scientific Critical Thinking - name: "scientific-critical-thinking" - description: "Evaluate scientific claims and evidence quality. Use for assessing experimental design validity, identifying biases and confounders, applying evidence grading frameworks (GRADE, Cochrane Risk of Bias)..." - allowed-tools: "Read Write Edit"

### Scientific Schematics - name: "scientific-schematics" - description: "Create publication-quality scientific diagrams using Nano Banana 2 AI with smart iterative refinement. Uses Gemini 3.1 Pro Preview for quality review. Only regenerates if quality is below threshold fo..." - allowed-tools: "Read Write Edit Bash"

### Seaborn - name: "seaborn" - description: "Statistical visualization with pandas integration. Use for quick exploration of distributions, relationships, and categorical comparisons with attractive defaults. Best for box plots, violin plots, pa..."

### Scientific Slides - name: "scientific-slides" - description: "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..." - allowed-tools: "Read Write Edit Bash"