Dear all, I am doing de novo assembly (aspergillus flavus) in clc genomics workbench when i export assembled file in fasta format i am getting error.
Export AGP
Export error: The scaffold region did not cover a region with N's (Annotation name: Scaffold Type: Scaffold: Region: 12036..12037 in CI21_(paired)_contig_2
Please explain me and how to solve this
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written
by
PK •
1 answer
I know this is 2+ years old - but
1/ this may have been a bug at the time if you were trying to directly export a de novo assembly to FASTA. The work around was to first call consensus contigs from the assembly graph, and then export that.
2/ in the latest version (GxWB12 as of this writing) you can dump FASTA directly from assembly results without issue.
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Since you are using commercial software the company should also offer you support on these issues.
Okay, but i am using trail version