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marbl / merqury

k-mer based assembly evaluation
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What are the spectra-asm in case of a single assembly? #119

Closed Axze-rgb closed 3 months ago

Axze-rgb commented 5 months ago

Hello,

I am evaluating a single assembly (so there is a single input fasta), and I have the spectra-asm plots in my output. As shown in the documentation, I understand those plots are used when comparing two assemblies.

The spectra-asm shows the distinct k-mers shared between col.fasta and cvi.fasta.

So, in my case, what do they represent? Or should I just ignore them? I don't understand what they could represent.

Thanks!

arangrhie commented 3 months ago

It simply shows which kmers you have covered in your assembly. Sort of a visual representation of the completeness, regardless of the copy numbers. Spectra-cn plot will be more useful as it shows the same information with copy numbers.