NCBI reported coverage from long and short reads

Question

[Morgan S.]

Hi there,

I was wondering, for the purpose of NCBI genome submission, can I add together the two coverages I calculated from Illumina Hiseq and Pacbio sequencing? E.g. Illumina coverage = 450, Pacbio coverage = 150, Total coverage reported to NCBI = 600X

Can this be done?

Thanks! Morgan

[Arton]

Hi Morgan, How did you calculate the coverage for long read data? Did you use a tool for it?

[Morgan S.]

Hi Arton,

I used this equation from the Illumina website. C = LN / G

C stands for coverage G is the haploid genome length L is the read length N is the number of reads

Answer 1

[GenoMax]

If you are calculating gross coverage in terms of base pairs present in the sequence then yes.

[Morgan S.]

Yes, this is what I did. Thanks so much for your quick reply!!