[Date Prev][Date Next][Thread Prev][Thread Next][Date Index][Thread Index]
Re: [modeller_usage] Regarding align2d & CS-BLAST alignments PLEASE ANSWER ME QUICKER ..I AM STUCK UP IN A FEW CASES
- To: Ashish Runthala <ashishr AT bits-pilani.ac.in>
- Subject: Re: [modeller_usage] Regarding align2d & CS-BLAST alignments PLEASE ANSWER ME QUICKER ..I AM STUCK UP IN A FEW CASES
- From: Modeller Caretaker <modeller-care@ucsf.edu>
- Date: Mon, 03 Oct 2011 10:52:56 -0700
- Cc: modeller <modeller_usage@listsrv.ucsf.edu>
On 09/12/2011 06:27 AM, Ashish Runthala wrote:
I am finding a critical difference in the pairwise alignment
computed by MODELLER and the corresponding alignment cognitive to the
CS-BLAST undertaken alignment.
That doesn't seem surprising. BLAST alignments are local and
approximate; Modeller does rigorous dynamic programming with global or
local alignments using a range of methods for constructing the residue
distance matrix.
Where CS-BLAST has got the altered sequences from, when i precisely
called the PDB for it.
You'll have to ask the CS-BLAST people about that.
Ben Webb, Modeller Caretaker
--
modeller-care@ucsf.edu http://www.salilab.org/modeller/
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage