Published April 8, 2021
| Version v2
Dataset
Open
Multi-parameter photon-byphoton hidden Markov modeling dataset
Authors/Creators
- 1. Department of Biological Chemistry, The Alexander Silberman Institute of Life Sciences, The Edmond J. Safra Campus, The Hebrew University of Jerusalem
- 2. Physical and Synthetic Biology. Faculty of Biology, Ludwig-Maximilians-Universitat Munchen
- 3. Department ofChemistry and Biochemistry, University ofCalifornia, Los Angeles
Description
The core jupyter notebooks demonstrating mpH2MM using real nsALEX data on DNA hairpin, the maltose binding protein MalE, and the type III secretion system effector YopO. Also included are the jupyter notebooks for generating simulated photon trajectories to test the validity of the Integrated complete likelihood (ICL) and mpH2MM on data where the ground truth is known.
Included are all HDF5 files used by the jupyter notebooks. Those for MalE and YopO are contained in zip files, and should be unziped maintaining the directory structure. All other HDF5 files should be kept in the same folder as the jupyter notebooks. Additional figures and csv files of H2MM models are included in separate zip file.
Files
1. Simulate 3D trajectories - 600s.ipynb
Files
(1.5 GB)
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