figtracer

figtracer maintains plain-text, versioned, and provenance-tracked lab records by threading each figure to the code and git commit that produced it across R and Python.

Key Features:

• Provenance tracking: Each figure is linked to the specific code and git commit that generated it.
• Plain-text records: Lab records including bench protocols, analysis figures, written lab notes, and project state are stored in plain text.
• Version control integration: Records are versioned through git tracking.
• Cross-language support: Works with both R and Python analysis environments.
• Electronic lab notebook functionality: Serves as a reproducible ELN for computational analyses.

Scientific Applications:

• Single-cell analysis: Built for recording and tracking analyses in single-cell studies.
• CyTOF analysis: Supports mass cytometry workflows and figure generation.
• Flow cytometry: Applicable to flow cytometry data analysis and documentation.
• Reproducible research: Enables full provenance tracking from bench protocol to publication figure.

Methodology:

Command-line toolkit that threads figures to the code and git commit that produced them; integrates with Obsidian, Quarto, and Jupyter.