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As for the scalp topographies referred to stimulus onset, bootstrap analyses of the topographies referred to P100 revealed no significant differences between recorded and synthetic topographies at a corrected p<.05 significance level.
Bootstrap analyses of the maximum parsimony method (based on the full heuristic search with the tree bisection reconnection branch-swapping algorithm) and neighbor joining methods (using p-distances) were also carried out based on 1,000 replications, using PAUP 4.0b10 [27] and Clustal X [28], respectively.
Topology of the resultant tree was evaluated by bootstrap analyses of the neighbour-joining dataset, based on 1000 resamplings [ 37].
To avoid such size-dependent effects, we performed bootstrap analyses of the coevolving pairs of sites (see material and methods).
Bootstrap analyses of the data in Figure 2 were done to assess the statistical support for identification of the preferred codon (see Additional File 1 and 2, [ 3]).
The placement of Hydrostachys within Lamiales also is strongly supported by maximum parsimony bootstrap analyses of the 5-gene matrix (Burleigh, unpublished).
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However, it is worth noting that the basicranial module is significant in only a small majority of primate species, as reflected in the bootstrap analyses of mean within-module correlation across species (Table 1).
Furthermore, while distance bootstrap analyses of protein sequences support, albeit weakly, the monophyly of Rodentia (Fig. 1), equivalent analyses performed on DNA sequences yield poorly supported consensus trees depicting non-monophyletic Glires, Rodentia and Primates/Dermoptera (not shown).
The branching patterns were evaluated statistically on the basis of bootstrap analyses of 1,000 replicates.
For both the ML and NJ methods, bootstrap analyses of 100 replicates were used to provide confidence estimates for the phylogenetic tree topologies.
For both the ML and NJ methods, bootstrap analyses of 1,000 replicates were used to provide confidence estimates for the phylogenetic tree topologies.
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