Measuring guide-tree dependency of inferred gaps in progressive aligners.

TitleMeasuring guide-tree dependency of inferred gaps in progressive aligners.
Publication TypeJournal Article
Year of Publication2013
AuthorsCapella-Gutiérrez S, Gabaldón T
JournalBioinformatics
Volume29
Pagination1011–1017
Date PublishedApr
Abstract

Multiple sequence alignments are generally reconstructed using a progressive approach that follows a guide-tree. During this process, gaps are introduced at a cost to maximize residue pairing, but it is unclear whether inferred gaps reflect actual past events of sequence insertions or deletions. It has been found that patterns of inferred gaps in alignments contain information towards the true phylogeny, but it is as yet unknown whether gaps are simply reflecting information that was already present in the guide-tree.

URLhttp://dx.doi.org/10.1093/bioinformatics/btt095
DOI10.1093/bioinformatics/btt095