[Staden-package] Hos easy is it to include 454 reads in Gap4?

[Marcus C. <mcl...@bi...>]

Hello, 
 
I have an assembly in Gap4 (from the latest Staden version 1.7)
consisting of 10,000 fosmid reads and want to complement it with a large
number of 454 reads. I have read that Staden can read this new file
format, but also that phrap isn't good at assembling them.

My question is, can I without too much problems, process the 454 reads
in Pregap4 using e.g. RepeatMasker and Phrap, and then appending them to
the existing Gap database?
 
If there are major difficulties assembling them into an existing Gap4
database, or if other non-Staden software is needed, I need to know this
before I order the sequences. 
 
Many thanks in advance! 
 
Marcus