Can Omni-C reads be used for genome polishing?

Question

[Biostar]

Hello,

I have no shotgun data for the genome which has already been polished with PacBio, but it could do with further improvement of gene completeness. I also have Omni-C reads of 150 bp paired end, but is it conceptually ok to use this data for genome polishing? If it is, do read 1 and 2 have to be mapped separately? What are the recommendations?

Thanks.

[colindaven]

What are Omni-C reads ? Do you have a link ?

[Biostar]

Omni-C is the library technology, sequencing is on Illumina platform. Here is the link: https://dovetailgenomics.com/omni-c/

Answer 1

[QLFblaireau]

It depends on how well the Omni-C covers the genome. If it covers it well that should be possible yes.

[Biostar]

Hello, I've got only about 10X depth of coverage calculating from number of reads. But I'm not sure about what is the coverage across the genome.