Real-time single-molecule 3D tracking in E. coli based on cross-entropy minimization

Experimental data description The data provided in this repository is generated by the microscope described in the publication mentioned above. The underlying real-time tracking principle and methods used are outlined and evaluated using the code base and data found in this repository. This includes; the trajectory reconstruction based on the cross-entropy minimization, the extended covariance estimator (ECVE) for diffusion, simulation for evaluating both trajectory reconstruction and ECVE method, and the Trigger Factor live cell E. coli data with analysis.

Each entry includes the raw data with analysis code. In each entry under the folder "TriggerFactor_Code\

Project

Main" is the main analysis python file, this file includes instructions on how to run the script. Also, in the folder there are preconfigured main files to generate data used in the manuscript, this is also available in the ScourceData.zip file. To understand how to use the code and the structure used please see entry: 20220722_EXP-22-BL9428_Example_Analysis and the README.txt file included.

Here you find the python requirements (dependencies and versions), and instructions on how to run simulations.