Difference between revisions of "DNA Melting Report Requirements for Part 1"

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(Part 1 report outline)
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* One member of your group should submit a single PDF file to Stellar in advance of the deadline. The filename should consist of the last names of all group members, CamelCased, in alphabetical order, with a .pdf extension. Example: <code>CrickFranklinWatson.pdf</code>.
 
* One member of your group should submit a single PDF file to Stellar in advance of the deadline. The filename should consist of the last names of all group members, CamelCased, in alphabetical order, with a .pdf extension. Example: <code>CrickFranklinWatson.pdf</code>.
 
* The file must be less than 20 MB.
 
* The file must be less than 20 MB.
* Include code at the end of the document in an appendix.
+
* Include code at the end of the document in an appendix, in the same pdf file, not as as separate upload.
  
 
==Part 1 report outline==
 
==Part 1 report outline==
 
# Document your circuit design, optical design, and any ways that your instrument differs from the system described in the lab manual.
 
# Document your circuit design, optical design, and any ways that your instrument differs from the system described in the lab manual.
 +
#* For example, record your choice of resistors, capacitors and lenses, as well as a diagram of your chosen optical components.
 +
#* If you have not modified the circuits from their form in the report, you do not need to include the schematic in your report.
 +
#* Include a picture of your instrument.
 +
# Report your signal to noise measurement.
 
# Plot at least one melting curve.  
 
# Plot at least one melting curve.  
 
#* The plot should have temperature in &deg;C on the horizontal axis and fraction of double stranded DNA on the vertical axis.
 
#* The plot should have temperature in &deg;C on the horizontal axis and fraction of double stranded DNA on the vertical axis.
 
#* On the same set of axes, include a simulated curve generated by DINAMelt, OligoCalc, or another software simulator.
 
#* On the same set of axes, include a simulated curve generated by DINAMelt, OligoCalc, or another software simulator.
#* Also on the same set of axes, plot the output of the <tt>DnaFraction</tt> function evaluated with best-fit parameters.
+
#* Also on the same set of axes, plot the output of the <tt>DnaFraction</tt> function evaluated with best-fit parameters. You may use nlinfit to choose the best-fit parameters or you may choose them manually.
 
#* Include a legend.
 
#* Include a legend.
 
# Report the estimated melting temperature and the best-fit values of ''&Delta;H&deg;'', ''&Delta;S&deg;''.
 
# Report the estimated melting temperature and the best-fit values of ''&Delta;H&deg;'', ''&Delta;S&deg;''.
# Report your signal to noise measurement.
 
 
# Explain the statistical method you will use to identify your group's unknown sample in part 2 of this lab.
 
# Explain the statistical method you will use to identify your group's unknown sample in part 2 of this lab.
 
#* State the acceptance/rejection criteria for any hypotheses tests you will use.
 
#* State the acceptance/rejection criteria for any hypotheses tests you will use.

Revision as of 21:29, 4 November 2015


Report requirements

  • One member of your group should submit a single PDF file to Stellar in advance of the deadline. The filename should consist of the last names of all group members, CamelCased, in alphabetical order, with a .pdf extension. Example: CrickFranklinWatson.pdf.
  • The file must be less than 20 MB.
  • Include code at the end of the document in an appendix, in the same pdf file, not as as separate upload.

Part 1 report outline

  1. Document your circuit design, optical design, and any ways that your instrument differs from the system described in the lab manual.
    • For example, record your choice of resistors, capacitors and lenses, as well as a diagram of your chosen optical components.
    • If you have not modified the circuits from their form in the report, you do not need to include the schematic in your report.
    • Include a picture of your instrument.
  2. Report your signal to noise measurement.
  3. Plot at least one melting curve.
    • The plot should have temperature in °C on the horizontal axis and fraction of double stranded DNA on the vertical axis.
    • On the same set of axes, include a simulated curve generated by DINAMelt, OligoCalc, or another software simulator.
    • Also on the same set of axes, plot the output of the DnaFraction function evaluated with best-fit parameters. You may use nlinfit to choose the best-fit parameters or you may choose them manually.
    • Include a legend.
  4. Report the estimated melting temperature and the best-fit values of ΔH°, ΔS°.
  5. Explain the statistical method you will use to identify your group's unknown sample in part 2 of this lab.
    • State the acceptance/rejection criteria for any hypotheses tests you will use.

Lab manual sections

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