sff files, fasta and fastq

[Feenix]

Hi all,

I am new to the whole analytical pipeline of GS FLX data.
Does anybody know whether the fasta and quality files produced from a FLX run are the same as what could be extracted from sff files?
Ultimately, i simply want to create fastq files and was curious whether this was the case?
Cheers

F

[kmcarr]

Yes they are the same. In fact that is how they are generated; the pipeline first generates the SFF files and then extracts the FASTA/QUAL files from it.

[Feenix]

Great! So no need to use sff_extract.
Thanks for the prompt reply Kmcarr
F

[create.share]

You may want to take a look at my tool also:

http://seqanswers.com/forums/showthread.php?t=43342

[kandasamyalkondan]

Can Q800R can be used to sonicate RNA