Search results
28 maj 2020 · MATERIALS AND METHODS. Complete pipeline. MINTyper is a complete pipeline for determining the phylogenetical relationship between a set of sequenced isolate samples, including automatic identification of a bacterial reference sequence.
19 mar 2016 · The function phyloSignalINT computes phylogenetic signal indices and tests for each internal node of a given phylogeny. Combined with lipaMoran, it can be helpful to identify an interesting region, exhibiting strong conservation, for example, in the phylogenetic tree.
29 lip 2011 · Given the Euclidean nature of the elementwise square root of phylogenetic distance matrices, the positive semidefinitiveness of the phylogenetic variance–covariance matrix of a trait following a BM model, or related models of trait evolution, can be established.
3 cze 2022 · An integrated metric of phylogenetic distances (AUPhyDC) uses information from the whole cumulative distribution, whereas the tenth quantile (PD10) is an extremely simple metric that improves on NTD by capturing the influence of multiple close relatives on ecological interactions.
20 lis 2013 · We present fastphylo, a software package containing implementations of efficient algorithms for two common problems in phylogenetics: estimating DNA/protein sequence distances and reconstructing a phylogeny from a distance matrix.
15 gru 2020 · Haplotype distance matrix and heat map. The haplotype distance matrix was computed from the haplotype sequence matrix (20x41) using the dist.hamming() function. The distance matrix shows the difference in the number of nucleotides between the two haplotypes.
19 paź 2016 · Significant results in the standard Mantel test show that the phylogenetic distances are related with the distances based on species traits, but do not distinguish such association from that expected given an evolutionary model of trait evolution.
