Difference between revisions of "Assignment 2: fluorescence microscopy"
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+ | Submit your work on Stellar in a single PDF file with the naming convention <Lastname><Firstname>Assignment2.pdf. | ||
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+ | {{Template:Assignment Turn In|message= Here is a comprehensive list of what you need to turn in: | ||
+ | Part 1 | ||
+ | # What percentage of the results fall with one, two, and three standard deviations? Is it reasonable to approximate this situation as a normal distribution? | ||
+ | # Produce a log-log plot of standard deviation of the number of photons emitted as a function of the average number of photons emitted for probability of photon emission equal to the values: 1E-6, 1E-5, 1E-4, 1E-3, and 1E-2. '''Hints:''' | ||
+ | #* Use a nested loop. | ||
+ | #* Speed things up by getting rid of the plotting inside the loop and only run 100 simulations for each probability. | ||
+ | # What is the relationship between the number of photons detected and the noise (standard deviation)? | ||
+ | # Repeat the simulation for a detector that has only a 25% chance of detecting a photon and a light source that is 4 time brighter. | ||
+ | # Turn in the code you used to generate the plots | ||
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+ | # On one set of axes, plot the average variance vs. mean for exposure times of 10<sup>-4</sup>, 10<sup>-3</sup>, 10<sup>-2</sup>, 10<sup>-1</sup>, 10<sup>0</sup> seconds. | ||
+ | # In what situations is dark current noise a significant problem? | ||
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+ | Parts 2 & 3 | ||
+ | # Choose focal lengths for L3, L4 and L5 so that the laser beam diameter matches the FOV of the CCD camera. | ||
+ | # Sketch a block diagram of the illumination path. Make sure to indicate | ||
+ | #* your chosen focal lengths for L3-L5, | ||
+ | #* the correct lens orientations, and | ||
+ | #* distances between components (if not important, leave blank). | ||
+ | # For each bead sample, include the original, reference, and flat-field corrected images in your lab report. In the caption note the exposure and gain settings used for each image. | ||
+ | # For one set of images (either the 0.84 or 3.6 μm beads and their corresponding dark and reference images), include the MATLAB code you used to calculate the flat-field correction. | ||
+ | }} | ||
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Revision as of 17:43, 19 September 2017
This assignment has 3 parts.
- Overview
- Part 1: Noise in images
- Part 2: Fluorescence microscopy
- Part 3: Build an epi-illuminator for your microscope
Back to 20.309 Main Page
Submit your work on Stellar in a single PDF file with the naming convention <Lastname><Firstname>Assignment2.pdf.