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[modeller_usage] Regarding alignment

To: modeller <modeller_usage@salilab.org>
Subject: [modeller_usage] Regarding alignment
From: Ashish Runthala <ashishr@bits-pilani.ac.in>
Date: Thu, 21 Apr 2011 19:33:21 +0530 (IST)

Dear MODELLERS, 
MODELLER doesn't incorporate MSP based alignment consideration. I have two queries. 

1. How to make MODELLER consider HSP to be extended on either  side to generate. 
2. How to generate a profile based best structural alignment of all considered templates against the target sequence.

Thanks
Ashish


Ashish Runthala,
Lecturer, Structural Biology Cell,
Biological Sciences Group,
BITS, Pilani
Rajasthan, INDIA

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