Difference between revisions of "Microscopy report outline"
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* '''Provide a detailed, correct, and comprehensive discussion of error sources for each measurement''' | * '''Provide a detailed, correct, and comprehensive discussion of error sources for each measurement''' | ||
** Is the resulting error random or systematic? | ** Is the resulting error random or systematic? | ||
− | ** | + | ** If the error is systematic, can you determine the sign of the effect and its approximate magnitude? |
** How could the error be reduced? | ** How could the error be reduced? | ||
* Present data properly | * Present data properly |
Revision as of 14:53, 10 October 2010
General guidelines
- Submit one paper per group.
- Bulleted list or outline format is encouraged
- Report numerical results properly
- Indicate the units of measurement
- Include the sample size and an appropriate measure of variability, such as a range, standard deviation, or standard error
- Use the abbreviation "s.d." for standard deviation and "s.e.m." for standard error after the "±"
- For example: 1.21 ± 0.03 GW (±s.d., n=42)
- Explain how you analyzed the data
- Summarize the algorithm used for all calculations and analyses
- Provide an outline of each MATLAB (or other language) function or script you used
- Put the complete code in an appendix
- Indicate the source of any code you did not write yourself
- Discuss your results
- Compare your results to theoretical predictions, reported values from literature, or other students' results
- Explain any factors that may have affected your results
- Provide a detailed, correct, and comprehensive discussion of error sources for each measurement
- Is the resulting error random or systematic?
- If the error is systematic, can you determine the sign of the effect and its approximate magnitude?
- How could the error be reduced?
- Present data properly
- Images should include a scale bar
- Plots should have a clear title; axes should be labeled with units; use a plot legend when appropriate
- See 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
- Microscope block diagram, 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 Objective1
- Images used for computation (with fit, if you like – see plotgaussfit command)
- Estimate of FWHM by Gaussian fitting1
- 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 tracks1
- 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 sample1
- Comments on results
- Sources of error
- Bullet point outline of all calculation and data processing steps
1Remember to include uncertainty and a discussion of error sources for all numerical results.