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sff files, fasta and fastq

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  • sff files, fasta and fastq

    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

  • #2
    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.

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    • #3
      Great! So no need to use sff_extract.
      Thanks for the prompt reply Kmcarr
      F

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      • #4
        You may want to take a look at my tool also:
        http://seqanswers.com/forums/showthread.php?t=43342

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        • #5
          Can Q800R can be used to sonicate RNA

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