I tried to use nanopore ultra-long reads to correct structural error in my hifi assembly. The inspector.py module did detect 443 structural error in the structural_error.bed, however the inspector-cor directly said
as flye seemed not working. I wonder if it caused by the length of the reads were usually longer than 50kb and sometimes 100kb.
I have tested to assemble a read_ass_chr01100958203100958204153col.fa by flye with default parameter which get a 23kb contig while the longest reads in the fasta file was 108640bp. And the program took nearly an hour to run for 15 reads in the fasta with a mean length of 90461 bp.
Could you please give me some suggestions to correct the structural error in my hifi assembly? Thanks a lot!
Hi dear developer,
I tried to use nanopore ultra-long reads to correct structural error in my hifi assembly. The inspector.py module did detect 443 structural error in the structural_error.bed, however the inspector-cor directly said
Inspector Assembly Fail chr012182326218242397exp ...
as flye seemed not working. I wonder if it caused by the length of the reads were usually longer than 50kb and sometimes 100kb.
I have tested to assemble a read_ass_chr01100958203100958204153col.fa by flye with default parameter which get a 23kb contig while the longest reads in the fasta file was 108640bp. And the program took nearly an hour to run for 15 reads in the fasta with a mean length of 90461 bp.
Could you please give me some suggestions to correct the structural error in my hifi assembly? Thanks a lot!