Page tree

Versions Compared


  • This line was added.
  • This line was removed.
  • Formatting was changed.


  • Which mapper finds more variants?
  • Can you figure out how to filter the VCF files on various criteria, like coverage, quality, ... ?
  • How many high quality mutations are there in these E. coli samples relative to the reference genome?

Next up

We will get a chance to look Look at how the reads supporting these variants were aligned to the reference genome by Using continuing the Integrative Genomics Viewer (IGV) tutorial.

Old stuff

Output - Samtools