[Bioperl-l] Scoring an overlap
florent.angly at gmail.com
Sat Sep 22 21:41:40 EDT 2007
Eventually, I gave Bio::Tools::dpAlign a try. I had no luck running it
when installing its dependency, bioperl-ext v1.4 or v1.5.1. However all
the tests passed when installing the CVS version.
So finally, here I am trying to score my alignments. For alignments of 2
small sequences, it works, but as soon as the sequences get bigger than
a few dozen nucleotides, it crashes:
Segmentation fault (core dumped)
I did not find any help in the documentation...
Can I fix this? Is this a bug?
Thanks for your help,
Florent Angly wrote:
> I need to quantify how good some overlaps in contigs are. I have
> extracted the alignment of the overlapping region and only need to
> score it. I noticed the Bio::Tools::dpAlign has a scoring function.
> Is it the right tool for the right tool? Is there anything else?
> Thank you,
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