Assembly size is bigger than estimated size by genome survey
kuangtianhui opened this issue · comments
Dear Author,
When performing genome survey via Illumina pair-end data, it showed that the genome size is 9, 700 or 1,400 Mb. However, when I assembled my Nanopore reads using Nextdenove with genome size of ~9, 700 or ~1, 400 Mb, respectively. I found that the output of Nextdenove is ~2,100 Mb. So, my issue is why I get results with genome size bigger than genome survey?
Best wishes,
Tian-hui Kuang
My version is the latest version.
May be caused by duplicated assembly in heterozygous regions or multiple haplotype assembly for polyploidy genomes.
Thanks! I get rid of redundancy using purge_haplotigs_multiBAM, but only about 70 Mb were removed! There are any other ways commanded to solve this issue? Thank you again!
It is hard to say. How about the assembly size by other assemblers?