This class we discussed the results from the Jellyfish run on Pyrobaculum oguniense. John St. John joined us and suggested some other tools to consider.
We set the goal of running Jellyfish on the Illumina slug data to estimate the genome size and error rates from the coverage. We will use a beta version of Jellyfish with support for FASTQ formatted input and write a simple script to translate QSeq formatted sequences to FASTQ format.