Supporting data for "Optimizing experimental design for genome sequencing and assembly with Oxford Nanopore Technologies"

High quality reference genome sequences are the core of modern genomics. Oxford Nanopore Technologies (ONT) produces inexpensive DNA sequences in excess of 100,000 nucleotides but high error rates make sequence assembly and analysis a non-trivial problem as genome size and complexity increases. To date there has been no comprehensive attempt to generate robust experimental design for ONT genome sequencing and assembly. <br>In this study, we simulate ONT and Illumina DNA sequence reads for the model organisms <i>Escherichia coli, Caenorhabditis elegans, Arabidopsis thaliana</i>, and <i>Drosophila melanogaster</i> and assemble with Canu, Flye,and MaSuRCA software to quantify the influence of sequencing coverage and assembly approach. Heterozygosity in outbred eukaryotes is a common problem for genome assembly.<br>We show broad applicability of our methods using real ONT data generated for four strains of the highly heterozygous nematode <i>Caenorhabditis remanei</i> and <i>C. latens</i>