Microscopy report outline
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Revision as of 01:20, 10 October 2010 by Steven Wasserman (Talk | contribs)
General guidelines
- This is a group report — one paper per group.
- Use of bulleted lists and tables is highly encouraged; long paragraphs are not necessary.
- Include a summary of the algorithm used for all calculations and analyses performed, including MATLAB (or other language) code. Put the code in an appendix.
- Don’t forget scale bars on images, titles, units, and labels on plots.
- Take a look at the Lab report general guidelines.
- The report should be in PDF format, submitted electronically to Stellar in advance of the deadline
Section 1: Microscope Documentation and Design
- Block diagram of the microscope, including all optical elements and relevant distances. It is unnecessary to document the details of the mechanical construction.
- Design calculations and considerations
- Photograph of your setup (optional, but nice)
Section 2: Microscope Characterization
- Basic optics: include a table with the following values for the 10X, 40X, and 100X objectives:
- Theoretical resolution
- Actual magnification by multiple measures (Air Force Target, Ronchi Ruling, microspheres)1
- Actual field of view (FOV)1
- Example pictures from each objective (fluorescence mode)
- Estimate of actual resolution of the 40X Objective
- Images used for computation (with fit, if you like – see plotgaussfit command)
- Estimate of FWHM by Gaussian fitting
- Bullet point outline of data analysis methodology
- Comments on estimated versus theoretical value
- Stability
- X-Y plots of sum and difference tracks for “stationary” particles.
- MSD versus time interval for sum and difference tracks
- Bullet point outline of data analysis methodology
- Comments on observed vs. expected data trend
Section 3: Fluorescence Microscopy
- Unprocessed Images of fluorescent bead and onion samples and associated reference images
- Corrected images
- Image or surface plot (see surf command in Matlab) of correction applied
- Histograms of original and corrected images
- Segmented onion image
- Corrected, fluorescent image overlayed on bright field onion image
- Bullet point outline of image processing methodology
Section 4: Particle Tracking
- X-Y plots of tracks for all 5 samples
- MSD versus time interval plots for 5 samples
- Estimate of diffusion coefficient and solvent viscosity for each sample
- Comments on results
- Bullet point outline of all calculation and data processing steps