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Nextomics / NextPolish

Fast and accurately polish the genome generated by long reads.
GNU General Public License v3.0
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MissAssembly Correction using NextPolish (Need Suggestions) #107

Closed DrNavi closed 1 year ago

DrNavi commented 1 year ago

I am working on fungal genome assembly using long reads and I am getting lots of misassemblies. Assembly was made using NextDenovo, which made 11 contigs with lots of misassemblies. stats are as follows:

Largest contig = 8126790 N50 = 5981938 misassemblies = 1939

I applied nextPolish as well but nothing improved. I m just wondering how can I improve this ?? The results of genome.nextpolish

Largest contig | 8126790 N50 | 5981938 misassemblies | 1939

relocations | 638

translocations | 1263

inversions | 38

misassembled contigs | 10

Misassembled contigs length | 43372515

local misassemblies | 192

I am really confused how to improve it? looking forward for your suggestion

moold commented 1 year ago

It is hard to avoid misassemblies, but you can try other assembly tools first.