[Bioc-sig-seq] putting Paired-End Illumina reads together

[Lana Schaffer]

Hi,
I would like to know if there is software to put
PE reads together?  In this case there is no
reference sequence for alignment.  The PE reads would
sometimes overlap or be close together by ~10-20bp.
There are matching titles for the paired reads.  There 
is a subset of reads from one of the reads which covers 
approximately the same region.  So this subset of reads
could be overlapped with the 2nd set of reads. Is this
possible?

Lana Schaffer
Biostatistics/Informatics
The Scripps Research Institute
DNA Array Core Facility
La Jolla, CA 92037
(858) 784-2263
(858) 784-2994
schaffer at scripps.edu