[Bioperl-l] Sequence Assembly:phrap to gap

Anthony Underwood theunderwoods at clara.co.uk
Fri Jan 23 04:41:35 EST 2004

Hi all, 

I have a slightly off-topic question. I am assembling sequences using
the script phredPhrap which makes a .ace format assembly as well as a
phrap.out format assembly. I am using BioPerl to extract a lot of the
relevant information from the assembly however I would like to view the
assembly by converting it to a gap4 database, and using stadens gap4
viewer. Does anybody know of a script (perl or otherwise) that can
convert either the .ace or .out assembly to a gap4 database. 

Many thanks, 

Dr Anthony Underwood
Bioinformatics Group
Genomics, Proteomic and Bioinformatics Unit
Central Public Health Laboratory
Health Protection Agency
61 Colindale Avenue
t:    0208 2004400 ext. 3618
e: anthony.underwood at hpa.org.uk 

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