Difference between revisions of "Microscopy report outline"
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==General guidelines== | ==General guidelines== | ||
− | * | + | * Submit one paper per group. |
− | * | + | * Bulleted list or outline format is encouraged |
− | *Include | + | * 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 | ||
+ | ** Outline each MATLAB (or other language) function or script you used | ||
+ | ** Put the complete code in an appendix | ||
+ | ** Don't forget to attribute the source of any code you did not write | ||
+ | * Images should include a scale bar | ||
+ | * Plots should have a clear title; axes should be labeled with units; use a plot legend when appropriate | ||
+ | |||
*Take a look at the [http://measure.mit.edu/~20.309/wiki/index.php?title=20.309:Lab_Report_Guidelines#Lab_report_guidelines Lab report general guidelines]. | *Take a look at the [http://measure.mit.edu/~20.309/wiki/index.php?title=20.309:Lab_Report_Guidelines#Lab_report_guidelines Lab report general guidelines]. | ||
*'''The report should be in PDF format, submitted electronically to Stellar in advance of the deadline''' | *'''The report should be in PDF format, submitted electronically to Stellar in advance of the deadline''' |
Revision as of 04:48, 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
- Outline each MATLAB (or other language) function or script you used
- Put the complete code in an appendix
- Don't forget to attribute the source of any code you did not write
- Images should include a scale bar
- Plots should have a clear title; axes should be labeled with units; use a plot legend when appropriate
- 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 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
- Bullet point outline of all calculation and data processing steps
1Remember to include uncertainty and a discussion of error sources for all numerical results.
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