Which is the MULTIPLE ALIGNMENT code that can be INTERFACED most EASILY ?
fuellen at REPLY-TO_HEADER_HAS_BEEN_SET_IN_ORIGINAL_POST_OR_JUST_REMOVE_THIS_SPAM_BLOCKERtechfak.uni-bielefeld.de
Wed Jul 30 16:15:55 EST 1997
I'm eager to hear your experiences and advice regarding multiple alignment
software, and interfacing to it. Just reply straight away, do it now :)
I'm looking for easily interface'able code for
a) the heuristic guide-tree driven alignment of 10-50 very short
(10-20 residues) biosequences,
b) the alignment of 2 profiles (using a profile alignment like ClustalW
does; again, the length is small),
c) the optimal or near-optimal alignment of such sequences using sum-of-pairs.
E.g., would you recommand ClustalW / MSA ? Or MAP ? Or MultAlin ?
Any other tools you tried ?
Do you have unreleased code for the task ?
all the best wishes,
Univ. Bielefeld, Research Group in Practical Comp. Science,
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