Hello,
I'm having a problem with mine assembly, I have a bacterial genome of 3.7bp assembled into 24 contigs, which was part of an under submission research, the reviewer gave me as a feedback that I should have a gap free sequence; Unfrontutly I can't not re-do the sequencing or use Pacbio. so I used ragout for reference-assisted assembly to improve the quality of my assembly; I got 1 scaffold of 3.7 bp, but a lot of ns (40000 n), how can I fix this problem? is this software reliable since I got some small fragment left? can I remove the ns without affecting the sequence?
thank you
I'm having a problem with mine assembly, I have a bacterial genome of 3.7bp assembled into 24 contigs, which was part of an under submission research, the reviewer gave me as a feedback that I should have a gap free sequence; Unfrontutly I can't not re-do the sequencing or use Pacbio. so I used ragout for reference-assisted assembly to improve the quality of my assembly; I got 1 scaffold of 3.7 bp, but a lot of ns (40000 n), how can I fix this problem? is this software reliable since I got some small fragment left? can I remove the ns without affecting the sequence?
thank you
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