Hands On Bioinformatics Exercise #3

  1. Explore IGV by trying out the suggestions in the Configurations to explore and Look around sections of the IGV notebook. Play with other settings!
  2. In the IGV visualization notebook we looked at the data from lanes 1 and 2 of library 27_MA. Pick one or more other libraries, generate a BAM(s), download, and view in IGV.

Bonus

  1. Generate BAMs from an RZ and an MA library of the same sample (e.g. sample 27) and compare them in IGV
  2. In the Demultiplex Raw FASTQs notebook we demultiplexed the dryrun data. Try to demuxtiplex one of the other pools: groups_EG or groups_KNP
  3. Try to convert the loop in the A globy pipeline section of the Looping with Globs notebook into a function and run it with one or more FASTQs.