Denovo Assemly of unmapped reads

Question

[sukesh1411]

Hi

How to determine the optimal k-mer value using velvet software for denovo genome assembly?

Thanks

Answer 1

[Sej Modha]

You can use VelvetOptimiser to determine the appropriate k-mer value for Velvet assembly.

Answer 2

[dbrowne.up]

In my experience, different regions of the genome are assembled optimally by different k-mer values. There is not one universally optimal k-mer value.