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  • Solexa anomaly.txt for structual variants

    Hi there,

    Anyone has experience parsing information out of anomaly.txt generated from eland_pair analysis? It has information about mate pairs mapping not in the expected orientation or distance..
    --
    bioinfosm

  • #2
    <bump>

    Guys, am still onto structural variants. 3 leads

    1 - MAQ SV. However, I am still not able to completely use it, any help with a test case?

    2 - Solexa Summary.htm for paired-end data. It has a whole lot of information on all the statistics and number, anyone has clues on how one may use it?

    3 - as I mentioned earlier, solexa's anomaly.txt file. It requires one's own parsing. Do people have some heads-up on cleanly doing so.

    Any other thoughts on solexa paired-end data to do structural variant analysis?

    thanks much..

    Another thread on this topic but no activity:
    Discussion of next-gen sequencing related bioinformatics: resources, algorithms, open source efforts, etc
    --
    bioinfosm

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