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This is different from the along- branch calculation used in TAED to discard saturated datapoints, but is given as an estimate of how far back (on average), pairwise analysis enables estimation of Ks. 367 families in TAED with close structural homologs in PDB were used to categorize general structural properties of sequence evolution.
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The branch metric calculation is based on 1-bit hard-decision with the Fano metric [11].
Using 3-bit soft-decision for the branch metric calculation results in about 1.75 to 2dB additional coding gain.
GC-8th has a larger ARMS than ME-4th for branch flows calculation in Scenario 2, while in Scenario 1 the differences are slight.
For the ith detection layer, the only first i elements in the ith row of the matrix R are used for the branch metric calculation in Eq. (5).
The computational complexity measured by the number of branch metric calculations is compared in Figure 12.
The computational complexity is measured by the number of branch metric calculations (BMC).
One most-parsimonious tree was chosen at random to serve as the basis for branch length calculations.
Because sequences of ccmB are missing for five taxa, this region was excluded from branch length calculations, together with the edited sites of the remaining regions.
Five Markov chains (four heated, one cold) were run for 150,000 generations using random starting trees and fixed model employed in branch length calculations.
JHG collected all new morphological data, analyzed the morphological partition, executed most of the parsimony analyses of the supermatrix including all branch support calculations and character optimizations, conducted all analyses that tested temporal implications, and took the lead in writing the manuscript.
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