UC Santa Cruz

In this work, I present methods which aim to facilitate the generation of diverse genomic assembly data, using primarily nanopore sequencing and the Shasta assembler. First, I describe methods for improving consensus quality in nanopore assemblies. Second, I present a method for transforming graph representations of assemblies. Finally, I describe a graph based phasing method which enables accurate, de novo, chromosome-scale phasing, with a total of 2 flow cells of nanopore sequence.