2012/02/06 by Brant C. Faircloth, Faircloth, Brant C., Jonathan Chang +4 · 2 citations
Biochemistry, Genetics and Molecular Biology · Earth and Planetary Sciences · #B.2.1 #C.5.3 #D.1.0 #Evolution and Paleontology Studies #FOS: Biological sciences #Genetic diversity and population structure #Genomics (q-bio.GN) #Genomics and Phylogenetic Studies #Populations and Evolution (q-bio.PE) #q-bio.GN #q-bio.PE
paper · pdf · doi:10.48550/arxiv.1202.1215
13 pages, 1 figure, 1 supplementary table, 3 supplementary figures
arxiv created 2012/02/06 · openalex publication_date 2012/02/06 · arxiv updated 2012/02/07 · openalex created_date 2016/06/24 · openalex updated_date 2026/07/28
Massively parallel DNA sequencing techniques are rapidly changing the dynamics of phylogenetic study design by exponentially increasing the discovery of phylogenetically useful loci. This increase in the number of phylogenetic markers potentially provides researchers the opportunity to select subsets of loci best-addressing particular phylogenetic hypotheses based on objective measures of performance over different time scales. Investigators may also want to determine the power of particular phylogenetic markers relative to each other. However, currently available tools are designed to evaluate a small number of markers and are not well-suited to screening hundreds or thousands of candidate loci across the genome. TAPIR is an alternative implementation of Townsend's estimate of phylogenetic informativeness (PI) that enables rapid estimation and summary of PI when applied to data sets containing hundreds to thousands of candidate, phylogenetically informative loci.