Calculating the PSF_X, PSF_Z values

[SachinDavis]

Hi,

How would I go about calculating the standard deviation for the PSF required by the automated spot detection function as input?

Sachin

[Henley13]

Hi Sachin,

The PSF values used for this function is the expected theoretical size of the PSF emitted by the spot you try to detect, in nanometer, along the z or y-x axis. It depends of your experiment. If you want to be really accurate, you can measure it with a fluorescent bead in your microscope. Otherwise, just run the function with a rough and visual estimate of your spot size. It is up to you to provide this value.

In addition, you can see our example notebook here.