Question

Denovo Assemly of unmapped reads

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7.7 years ago

sukesh1411 ▴ 30

Hi

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

Thanks

Assembly • 1.6k views

ADD COMMENT • link updated 7.7 years ago by dbrowne.up ▴ 80 • written 7.7 years ago by sukesh1411 ▴ 30

score 0 · Answer 1 · 2016-08-12

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7.7 years ago

Sej Modha 5.3k

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

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score 0 · Answer 2 · 2016-08-26

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7.7 years ago

dbrowne.up ▴ 80

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.

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