Sentence examples similar to using a gtr matrix from inspiring English sources
In addition, a Bayesian tree was calculated with MrBayes 3.1 [45] using a GTR model with invariable sites and rate heterogeneity.
Phylogeny was inferred using a GTR + Γ4 + I model.
All alignments were subjected to ML phylogenetic inference in RAxML, using a GTR + I + Γ4 model.
RAxML was used to fit 1,000 bootstrapped tree topologies and optimize branch lengths using a GTR model [ 31, 32].
Maximum likelihood trees were constructed with Phyml v3.0 [ 60] using a GTR substitution model and visualized with Dendroscope [ 61].
We used a GTR + I + G distance correction model with gamma distribution shape parameter = 1.70.
The analysis used a GTR model with among site rate heterogeneity (gamma distribution with 8 categories).
For 28S we used a GTR+G model; for COI we used a GTR model with separate rates for each codon position.
Each gene was then evolved down its subtree under a General Time Reversible process with rates for sites drawn from a Gamma plus Invariable distribution (GTR+Gamma+I) [ 24]), using a variety of GTR matrices estimated for different biological datasets (see Appendix [Additional file 1]).
The significance of population differentiation was calculated from the distribution of individual haemosporidian lineages generated from 10 000 random permutations using a pairwise GTR-corrected distance matrix.
"It's just using a different matrix".
