Hello, I studied the papers for DIALIGN and only in the newest Version DIALIGN-TX (Subramanian u. a., 2008) I can find the information that DIALIGN uses a guide tree. In the appdoc to edialign I read that emboss uses DIALIGN2. In this Publikation (Morgenstern, 1999) I cannot find an information that a guide tree is used. Also in the original DIALIGN2 documentation I read: "This tree is constructed by applying the UPGMA clustering method to the DIALIGN similarity scores." but nothing that this tree is used for guiding.
So is this information in the emboss appdoc incorrect? At all: is there a plan to update to DIALIGN-TX? Thanks, Wolfgang Morgenstern, B.: DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment. In: Bioinformatics (Oxford, England) Bd. 15 (1999), Nr. 3, S. 211-218. – PMID: 10222408 Subramanian, A. ; Kaufmann, M. ; Morgenstern, B.: DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment. In: Algorithms for Molecular Biology Bd. 3 (2008), Nr. 1, S. 6 _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
