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Unique identifier OMICS_29774
Name NeighborNet

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Publications for NeighborNet

NeighborNet citations

 (216)
call_split

Symbols in motion: Flexible cultural boundaries and the fast spread of the Neolithic in the western Mediterranean

2018
PLoS One
PMCID: 5929525
PMID: 29715284
DOI: 10.1371/journal.pone.0196488
call_split See protocol

[…] somewhat flawed because cultural traits are transmitted through time from generation to generation (vertical transmission) but also between neighboring populations (horizontal transmission) [,]. The NeighborNet technique explores evolutionary relationships characterized by potentially high levels of lateral transfer that are not perceivable through other network-based methods []. We used the Neig […]

call_split

Analysis of Phylogenetic Variation of Stenotrophomonas maltophilia Reveals Human Specific Branches

2018
Front Microbiol
PMCID: 5932162
PMID: 29755435
DOI: 10.3389/fmicb.2018.00806
call_split See protocol

[…] od optimization to account for the rate of heterogeneity among sites. The consensus tree was rooted with the “midpoint root” option in FigTree, and nodes were arranged in increasing order. We built a NeighborNet splitstree using the program Splitstree4 () with default settings. Based on the set of SNP positions, isolates were also grouped together by a maximum distance of distinct SNP positions to […]

library_books

A Bayesian phylogenetic study of the Dravidian language family

2018
R Soc Open Sci
PMCID: 5882685
PMID: 29657761
DOI: 10.1098/rsos.171504

[…] To visualize potential conflicting signal in our lexical dataset, we first constructed a NeighborNet network () using SplitsTree v. 4.14.4 []. The network was calculated from the cognate-coded data using Hamming distances between pairs of languages. The size of the boxes at the core of th […]

call_split

Hidden species diversity in Sylvirana nigrovittata (Amphibia: Ranidae) highlights the importance of taxonomic revisions in biodiversity conservation

2018
PLoS One
PMCID: 5851555
PMID: 29538432
DOI: 10.1371/journal.pone.0192766
call_split See protocol

[…] ace plots were viewed using Tracer 1.6 [].An unrooted phylogenetic network of the concatenated nuDNA dataset was constructed using SplitsTree v4.14.4 [] with uncorrected ‘p’ genetic distances and the NeighborNet algorithm to visualize overall divergence patterns while accounting for reticulate (non-branching) relationships. Only samples having both POMC and NCX sequence data were included in the p […]

library_books

Comparative Genomic Analysis of a Clinical Isolate of Klebsiella quasipneumoniae subsp. similipneumoniae, a KPC 2 and OKP B 6 Beta Lactamases Producer Harboring Two Drug Resistance Plasmids from Southeast Brazil

2018
Front Microbiol
PMCID: 5820359
PMID: 29503635
DOI: 10.3389/fmicb.2018.00220

[…] support. Tree editing and annotation were performed using interactive Tree of Life (iTOL) (Letunic and Bork, ). A phylogenetic network using the same aligned sequences as input was inferred using the NeighborNet algorithm and untransformed distances (uncorrected-p) in SplitsTree4 v. 4.14.6 (Huson and Bryant, ). The pairwise homoplasy index (phi) (Bruen et al., ) was calculated within SplitsTree4 t […]

library_books

Genetic diversity of equine herpesvirus 1 isolated from neurological, abortigenic and respiratory disease outbreaks

2018
PMCID: 5947664
PMID: 29423949
DOI: 10.1111/tbed.12809

[…] eted as supporting various modes of evolution, including recombination (Huson, ; Huson & Bryant, ). A splits network was constructed using sequence data from UL for all strains, employing the default NeighborNet method implemented in Splitstree v. 4 (Figure ). The network showed the existence of 13 clades, arranged very similarly to the clades identified in the ML phylogenetic analysis (Figure a). […]


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NeighborNet institution(s)
Department of Mathematics, University of Auckland, Auckland, New Zealand; School of Computing Sciences, University of East Anglia, Norwich, UK

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