[Biopython] How can i use muscle to align with biopython?

[Andrew Perry]

On Mon, Aug 24, 2009 at 2:27 PM, Italo Maia <italo.maia at gmail.com> wrote:

> Ok, with clustal i import MultipleAlignCL and do_alignment and do the
> stuff,
> but where is the alignment modules for muscle?
> Using biopython 1.5.1 here with ubuntu 9.
>
>
According to the docs, Bio.ClustalW.MultipleAlignCL is now considered
"semi-obsolete".

The newer wrappers for multiple alignment programs (including MUSCLE) can be
found as part of Bio.Align.Applications in Biopython 1.51.

See the cookbook example here:
http://biopython.org/DIST/docs/tutorial/Tutorial.html#htoc68


Andrew Perry

Postdoctoral Fellow
Whisstock Lab
Department of Biochemistry and Molecular Biology
Monash University, Clayton Campus, PO Box 13d, VIC, 3800, Australia.
Mobile: +61 409 808 529