H2MM Analysis: Single-Molecule Photon Data for Hidden Markov Modeling

Matlab files contain variables and results from H2MM analysis of single-molecule fluorescence bursts. The data includes photon timestamps, stream identities, and optimized model parameters for state transitions. Eitan Lerner authored this dataset, which is shared via paperswithcode.

Use Cases

• Optimizing hidden Markov models for smFRET data based on initial and converged probability matrices.
• Performing dwell time analysis on molecular states based on Viterbi algorithm output paths.
• Calculating model selection criteria like BIC based on the provided log-likelihood values.
• Analyzing photon arrival trajectories and burst properties for single-molecule dynamics.

Strengths

• Includes both raw input data (photon timestamps, burst lists) and processed model outputs (optimized matrices, likelihoods).
• Provides specific example variables for a 4-state model, illustrating the data structure.
• Contains variables necessary for full analysis pipeline from H2MM to Viterbi to dwell analysis.

Limitations

• Description metadata is limited; actual data quality requires manual inspection after download.
• Row count is unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.

Provenance

Source

Eitan Lerner via paperswithcode

Collection Method

Likely generated from experimental single-molecule fluorescence measurements and subsequent computational analysis.