PICS-Ord: unlimited coding of ambiguous regions by pairwise identity and cost scores ordination

Background We present a novel method to encode ambiguously aligned regions in fixed multiple sequence alignments by 'Pairwise Identity and Cost Scores Ordination' (PICS-Ord). The method works via ordination of sequence identity or cost scores matrices by means of Principal Coordinates Anal...

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Bibliographic Details
Published in:	BMC bioinformatics Vol. 12; no. 1; p. 10
Main Authors:	Lücking, Robert, Hodkinson, Brendan P, Stamatakis, Alexandros, Cartwright, Reed A
Format:	Journal Article
Language:	English
Published:	London BioMed Central 07.01.2011 BioMed Central Ltd Springer Nature B.V BMC
Subjects:	Algorithms Bioinformatics Biomedical and Life Sciences Cladistic analysis Computational Biology - methods Computational Biology/Bioinformatics Computer Appl. in Life Sciences Computer Simulation DNA - genetics DNA sequencing Lichens - genetics Life Sciences Likelihood Functions Methodology Methodology Article Methods Microarrays Nucleotide sequencing Ordination Performance assessment Phylogeny Principal Component Analysis Sequence Alignment - methods Sequence Analysis, DNA - methods Simulated Dataset Internal Transcribe Spacer Ambiguous Region Phylogenetic Signal Biological Dataset
ISSN:	1471-2105, 1471-2105
Online Access:	Get full text
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