[Bioperl-l] cigarline conversion

Jason Stajich jason.stajich at duke.edu
Thu Mar 24 20:42:49 EST 2005

I think you'll have to write it or steal from Ensembl.

I assume it isn't so hard to do walking through the seqs in the 
alignment.  Propose the algorithim to convert it and maybe some of the 
willing volunteers who listen to the list and want to be contributing 
to bioinformatics will volunteer to code it.

Jason Stajich
jason.stajich at duke.edu

On Mar 21, 2005, at 8:01 AM, Johnson, Nathan wrote:

> Hi bioperlers
> Does anyone know of a module which handles the conversion of multiple
> alignment cigar line format(multiple strings with M and D's but no I's)
> cigar line data to a pairwise format (one string with M,D and I's).
> SimpleAlign doesn't seem to do what I want :\
> Cheers
> Nath
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