[Biopython-dev] Newbler ACE file to SAM?

Nick Loman n.j.loman at bham.ac.uk
Wed Aug 4 14:48:53 UTC 2010

Hi biopython-developers,

Has anyone written any code to convert ACE files (Newbler ACE, in 
particular) to SAM format?

I've seen a little bit of discussion on this subject in various places:

It seems that a quick way of doing this would involve Biopython's 
support for reading ACE and (perhaps) PySam's support for writing SAM 

The reason I would prefer to convert ACE files to the 454PairAlign.txt 
file as this would mean support for both de novo assemblies as well as 
mapping projects. I am not particularly au fait with the SAM format but 
can't see why that shouldn't work.

If no-one has started writing something I would be happy to give it a go 
but equally if someone has I'd be more than happy to try it out :)



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