how to get the reads which are not assembled in velvet

[newBioinfo]

Hi Everyone,
I am new to NGS, I have assembled contigs of the metagenome data using velvet, I want to know how to get the reads which were not used in the assmbely of contigs.


Thanks!!!

[seb567]

Hello,

You can get unassembled reads by adding -unused_reads yes to the velvetg
computer program.

For metagenome assembly, you can also try Ray (version v2.0.0-rc8).

I am one of the authors of Ray.

See http://denovoassembler.sf.net

We will submit a manuscript this week about metagenome assembly and coupled profiling with Ray.


Séb

[newBioinfo]

Thanks Seb,
I used the unused read option when I read velvet manual again.