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Re: [modeller_usage] How to build customized salign result?



On 07/25/2011 12:38 AM, Ashish Runthala wrote:
Tell me the solution to a query. Suppose I have 4 templates for a
target sequence. And while using salign_multiple.py, I want to start
the progressive alignment specifically from template 2 only, to let
others follow this template2 alignment. Tell me the way to make
salign force the progressive alignment starting on from a specific
template only?

Progressive alignment aligns each sequence to the first sequence in the alignment, so simply put template 2 first in your alignment file (or list the align_codes explicitly when you read in the alignment file, and put template 2's align code first in that list).

	Ben Webb, Modeller Caretaker
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             http://www.salilab.org/modeller/
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