metavirome coverage with spades assembler

Question

[scarabbeetle]

Hi

I am completely new to this field and have no experience in bioinformatics . We have recently sequenced a metavirome using illumina miseq platform (2x300). All the reads were assembled using Spades genome assembler available on illumina basespace using default settings. The output contigs had filenames like 6048_NODE_27_LENGTH_43376_COV_6.27809_ID_53

In this example what does LENGTH_43376_COV_6.27809 mean

From what I understood cov indicates kmer coverage can this information be used to calculate the actual contig coverage?

Thanks

[5heikki]

Is the length of this particular contig 6,909 bp?

[yangchengzhong518]

Hi, I am encountering the same problem? I want to know whether you soved the problem. If yes, could you please tell me how?

Answer 1

[Sej Modha]

SPAdes employs Velvet assembler headers style explained in details on

http://seqanswers.com/forums/showthread.php?t=6887 and Confusion about the kmer coverage