tritemio / 48-pixel-spad-crosstalk-analysis

Optical crosstalk in SPAD arrays for high-throughput smFRET

48-pixel SPADs Crosstalk Analysis

Compute optical crosstalk in 48-pixels SPAD arrays. This repository contains the notebooks used for the analysis of the paper:

Optical crosstalk in SPAD arrays for high-throughput single-molecule fluorescence spectroscopy
Ingargiola et al. bioRxiv (2017) doi:10.1101/207118

How to use?

Read the notebooks

• Crosstalk Theory and Simulations.ipynb
• Optical Crosstalk Estimation.ipynb
• ACF and CCF.ipynb

Download results

View or download CSV data files generated by the analysis from the results/ folder.

Download notebooks and raw data

Download the complete ZIP archive from this link and extract it.

You also need to download two datasets from figshare and put them in the data/ folder.

Re-run the analysis

Your need python 3.6+, FRETBursts 0.6.5+, phconvert 0.8+, pycorrelate 0.1.

You can recreate the original conda environment used for running this analysis using the file conda_environment_windows.yml.

License

All the text and documentation are released under the CC BY 4.0 license. All code is under the MIT license (see LICENSE.txt).

Copyright 2017 The Regents of the University of California, Antonino Ingargiola, Maya Segal