FRETBursts Reference Manual

Contents:

• Loader functions
  • List of loader functions
  • Load data manually
• The “Data()” class
  • “Data()” class: description and attributes
  • Summary information
  • Analysis methods
  • Burst corrections
  • Burst selection methods
  • Fitting methods
  • Timestamp access methods
• Photon selections
• Background estimation
  • background.py
  • Low-level background fit functions
• Burst selection
  • Selection functions
• Fit framework
  • MultiFitter reference documentation
  • Overview
  • Fitting E or S histograms
  • Lmfit introduction
  • Legacy Fit functions
• Direct FRET fitting
• Plotting Data
  • Timetrace and ratetrace plots
  • 1D Histograms
  • ALEX plots
  • Scatter plots
• Burst Search in FRETBursts
  • Defining the rate estimator
  • Conventions in burst search
  • The Core Algorithm
  • Burst Fusion
  • Low-level burst search functions
• Photon rates functions
• FRETBursts plugins
• Why an HDF5-based smFRET file format
  • What is HDF5?
  • The HDF5 ecosystem
  • Why HDF5 and smFRET?
  • HDF5 in FRETBursts
• FRET Correction Formulas
• Description of the files
  • burstlib.py
  • loader.py
  • select_bursts.py
  • burst_plot.py
  • background.py
  • phtools (folder)
  • dataload (folder)
  • fit (folder)
• FRETBursts Cython extensions