Hi, I have nanopore reads and a very fragmented genome assembly (~500 contigs for 16-20 mb genome) but not the illumina reads. I have used canu and generated a de novo assembly (44 contigs) from the nanopore reads (~30x). Since I do not have illumina reads, I could not polish this de novo assembly. Therefore, many of the ORFs could not be annotated (due to base pair level errors). I was wondering if there is any way to use the contigs (assembled from illumina reads) and improve the assembly quality (rectify base pair level errors). I have also tried LINKS and SMIS and could improve the assembly from ~500 contigs to ~200 contigs but we need a better assembly for our downstream analysis. I would appreciate if anybody can suggest any way out. We might get some illumina sequence reads in a month or so, but I wanted to know if anything can be done with what we have now.