Repository containing all Warren Lab MATLAB laser code written by David Weber. See Applications of numerical linear algebra to protein structural analysis: the case of methionine-aromatic motifs for more information.

• Disclaimer
• Layout
• Description
• Example for Laser Options parameters
• Description of all files and directories

• I am not a MATLAB expert. Actually I learned MATLAB on the fly simply to fulfill the requirements of this project. I acknowledge that this code is far from ideal and I would have done many things differently now that I am more experienced.
• Some of this code was automatically generated using the MATLAB GUI editor.
• This code can likely very easily (and should) be broken up into individual *.m files.

Note that in the Layout example, the "user" has indicated they wish to collect 3 groups of 25 shots and have inputted a delay time of 2 seconds. What does this mean? An oscilloscope reading the output of the PMT will first collect 25 reads with a shutter blocking the Nd:YAG laser from striking the sample cuvette. This is the blank read. The shutter will then open and the Nd:YAG laser will reach (and excite) the sample 25 times. The sample will emit light which will be picked up by the PMT/oscilloscope. The blank data will then be subtracted from the experimental data to yield corrected data. Corrected data will then be signal averaged. Recall that the user specified 3 groups of shots. The aforementioned sequence of events will now be repeated three times, with a delay of 2 seconds between each group. The figure below very nicely depicts this sequence of events: