Chapter 6 Nanopore Sequencing

6.1 Summarizing our Nanopore sequencing

Within the /Smaug_SSD/BIOL209/nanopore_raw_data folder you will find a report_Nanopore_YOURSAMPLE.pdf file. Download it and open it.

  1. Answer the following questions:
  1. How many reads were generated by your Nanopore run?
  1. How many bases passed the quality filters?
  1. Based on the Read Length Histogram Basecalled Bases figure, what was your N50?
  1. Based on your Read Length Histogram Basecalled Bases, what was the length of the longest read you sequenced?
  1. Based on the Mux Scan Grouped figure, what was the maximum number of Active pores (green bars) in your run? What time?
  1. Based on the QScore figure, do you see a decrease in quality over time?
  1. Based on the output by the Run Debug Messages, what was the initial number of available pores? What was the minimum number of available pores?