This is a test version of Biostars. For the public version, visit https://www.biostars.org.
what is Kmer coverage

I have been reading about kmer coverage value produced by DNA assemblers such as SPAdes or velvet, however I have not understand this concept.

If i have the following SPAdes header:

NODE_3_length_237403_cov_243.207

cov=243, mean that 243 reads that were used to reconstruct the NODE3 contig have the exact sequence of the kmer?

sequence genome metagenome assembly spades
• 2,101 views • link
updated by Buffo Buffo • written by vm.higareda • vm.higareda

1 answer

No, that coverage means kmer-coverage. If you need the RDC, you have to map your reads against the assembly and calculate it.

• 0 views • link
written by Buffo Buffo

How I can interpretate kmer coverage, what cov=243 mean?

• 0 views • link
written by vm.higareda • vm.higareda

Log in to answer this question.

More posts like this