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  • running out of disk space (Solexa)

    Hi,

    In my group we have a Solexa machine and we are having problems in saving all data generated by a run. Until now I have been using only the fastq files and some report files but nothing else. (I know that public databases like GEO can accept only fastq files: http://www.ncbi.nlm.nih.gov/projects/geo/info/seq.html)

    Questions: Is it ok to remove all the other files for good? Do they retain any important information that fastq files cannot give?

    All comments are appreciated.
    Best regards.

  • #2
    Some people are keeping every scrap of data, but I think that lots of labs are, for space reasons, tossing most of the intermediate files.

    The new IPAR set-up automatically tosses the images, I think, unless you set up some pipeline to store them elsewhere. In theory, the intensity files could be run through alterante pipelines, like Alta-cyclic, so there might be a reason to hang onto those, but what are the odds of you actually doing that with most of your data?

    I know I'd feel a bit safer with the whole Gerald folder, or maybe keeping the .prb files and the .seq files too, so you can remake the fastq, if you had to.

    Comment


    • #3
      blobs anyone?

      see bloby images at



      what others say at




      Save all data=quality control, unexpected discrepancy resolution between experiments and labs. Resequence vs reanalyze? What if there is no more sample?

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