Agent skill · creative production · delphine-l
bioinformatics-visualization
Publication-quality bioinformatics figures - phylogenetic trees, genome browsers, iTOL datasets, and data presentation
Why this skill is useful
Provides specific dataset formats and troubleshooting steps for iTOL that the AI wouldn't reliably generate on its own.
What it needs
Requires itol account access. About 2k tokens when loaded. Last updated 2026-05-14. 17 stars on the source repository.
What this skill does
Bioinformatics Visualization --- iTOL Dataset Formats and Troubleshooting Choosing the Right Dataset Type DATASETBINARY (Recommended for markers/symbols): More reliable than DATASETSYMBOL All species must be listed with binary values (0 or 1) Simpler format, better iTOL compatibility Use for: presence/absence markers, technology indicators, categorical highlights Format example: DATASETSYMBOL (Less reliable): Can be finicky about format Per-species shape/size/color specifications complex May not display correctly even with valid format Avoid unless BINARY doesn't meet needs DATASETCOLORSTRIP (Good for gradients): Reliable for color gradients (e.g., temporal data, continuous values) Only species with data need to be listed Good for non-binary categorical or continuous data Common iTOL Errors and Fixes Error: "Unknown variable 'SYMBOLSHAPE'" Cause: Mixing global symbol settings with per-species data Fix: Switch to DATASETBINARY format Error: "Invalid color '1' for node X" Cause: DATASETSYMBOL data format mismatch Fix: Use DATASETBINARY instead, format: species<tab>0or1 Symbols not appearing on tree: Likely cause: DATASETSYMBOL format issues Fix: Convert to DATASETBINARY Verify: Check that all species in config exist in tree file Species Name Compatibility Critical: Species names must match exactly between tree and annotation files Common issues: 1. Case sensitivity: "Alca Torda" vs "Alcatorda" 2. Spaces vs underscores: Always use underscores in tree format 3. …
How to use it
Reference it in AdaL, Claude Code, Cursor or any coding agent — nothing to install:
@skills delphine-l/visualization