Papylio

Papylio is a Python package tailored for single-molecule fluorescence time trace analysis, designed to streamline the entire data workflow from image processing to quantitative interpretation. Whether you're working on FRET experiments, kinetic modeling, or SPARXS, Papylio brings your analysis into one cohesive environment.

Key Features:

Molecule localization and trace extraction
Precisely identify fluorescent molecules within imaging data and retrieve fluorescence intensity time traces from identified molecules.

Trace selection & classification
Efficiently filter and classify traces. Derive kinetic insights from traces using Hidden Markov Modeling and dwell time analysis including maximum likelihood estimation.

SPARXS integration
Analyse SPARXS (single-molecule co-localization and alignment) data for sequence-dependent properties.

Built to be modular and easy to use, Papylio provides both GUI-based workflows for interactive tasks and a Python API for scripting and automation. It supports the full analytical pipeline—plug in your raw data, and Papylio guides you toward quantitative insights with flexibility and rigour.