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Pylake is a Python package for analyzing single-molecule optical tweezer data.

Its main features include:

  • Analyzing HDF5 and TIFF data obtained with Bluelake: Pylake provides a convenient interface to read, analyze and plot data obtained with Bluelake.
  • Correlating data: Provides functionality to correlate optical tweezer and imaging data.
  • Fitting force-extension curves: Pylake provides tools to (globally) fit polymer models to force-extension data.
  • Force calibration routines: The package contains algorithms to calibrate optical tweezer data using power spectral density estimation.
  • Kymotracker: Tracks single molecules in a kymograph and computes binding rates and diffusion constants.

Please see the documentation for more information.

Citing

Pylake is free to use under the conditions of the Apache-2.0 open source license.

If you wish to publish results produced with this package, please mention the package name and cite the Zenodo DOI for this project:

DOI

You'll find a "Cite as" section at the bottom right of the Zenodo page. You can select a citation style from the dropdown menu or export the data in BibTeX and similar formats.