Open lijingjing1 opened 7 years ago
I am not familiar the algorithm behind wtdbg. I can't comment on that. Without understand the nature of such such genome by looking at the data in detail, it will be hard to guess what is going.
yeah, I got the same trouble how can I select the parameters to assemble the high heterozygosity genome? When I change my parameters and got larger N50, I got the larger genome size at the same time, maybe because the heterozygosity region. Similarly, the smaller genome, the smaller N50. So please give some advices for the problem. Thanks!
Hi all We have a genome size about 600 Mb with high heterozygosity about 3%,and we have 42 Gb,N50 11 Kb pacbio data. I got this genome size 1.36 Gb,N50 60 Kb a very bad result with falcon,but we use another assemble software wtdbg (https://github.com/ruanjue/wtdbg) to assemble with those pacbio data it give a result 545 Mb,N50 1.1 Mb.
I want konw what make those issue to happen assemble large then estimated and N50 much smaller?Can we get a more better result with falcon if we continue to sequence pacbio data.