[Bioperl-l] Find tiling path

[Remo Sanges]

On Jun 18, 2004, at 3:29 PM, michael watson (IAH-C) wrote:

> Quick question:
>
> I have a database of sequences.  One of my queries hits one sequence in
> the DB, another hits a different sequence in the DB.  I have reason to
> believe that other sequences in the DB will form a "tiling path" 
> between
> sequence 1 and sequence 2 so I can create a contig that spans the gap.
> Is there something which does that?  I'm using BLAST as my query
> algorithm.

You can try Cap3
http://genome.cs.mtu.edu/cap/cap3.html
or Phrap
http://phrap.org/

Remo