Reads extraction: MinION

You should be able to answer these questions if you successfully completed tutorial Extraction of MinION reads .

• Are you familiar with the fastq format? What does each line correspond to? Hint

• What are the other utilities embedded in the poretools toolkit? Hint

• How many reads are in your dataset? Hint

• How would you change the command line if you wanted to only extract the reads corresponding to a high quality subset of the 2D reads? Are there any 2D reads with no complementary template/complement? How are the 2D reads generated? Hint

• Choose a 2D read at random. Look for the corresponding reads in 1D (template/complement). Do you see an improvement in the quality scores? Hint

Reads extraction: PacBio

You should be able to answer these questions if you successfully completed tutorial Extraction of PacBio reads subsection.

• How many reads are in your dataset? From how many flowcells?

• How are these reads called according to the PacBio terminology? Hint

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