Solexa anomaly.txt for structual variants

[bioinfosm]

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]

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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:

http://seqanswers.com/forums/showthread.php?t=732&highlight=structural