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The matrix representation methods, headed by MRF_PU (12.5%), are also the best methods when data are missing.
In Figure 8a, we see that the matrix representation methods can estimate the species tree quite accurately in the presence of complete data; MRP_PU and MRF_PU give the best results with a mean reconstruction error of 4.6% and 4.7%, respectively.
The first main result is that one of the matrix representation methods, which are the most abundant supertree reconstruction methods used in the literature, usually shows the second-best result after superalignment.
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Wave propagation in the samples was also analyzed numerically using a matrix representation method.
The system conguration and design are discussed, and the energy and mass balances are obtained through the matrix representation method and integrated into a simulation program by MATLAB soft package.
Here we use the matrix representation with parsimony method to produce the first fully inclusive supertree of Charadriiformes.
These 4,805 trees were used as input data for our supertree analysis, constructed using three different methods: matrix representation with parsimony (MRP) [ 25, 26], the average consensus method (AV) [ 27], and the most similar supertree analysis (MSSA) method [ 21].
Of the many supertree methods, the most popular is MRP (Matrix Representation with Parsimony), a method that operates by first encoding the input set of source trees by a large matrix (the "MRP matrix") over {0,1, ?}, and then running maximum parsimony heuristics on the MRP matrix.
Many previous supertree studies [ 22, 55- 64] have used the popular matrix representation with parsimony (MRP) method [ 65, 66] only, though some more recent studies use multiple methods [ 67, 68].
Trees chosen for the supertree computation were coded into a binary matrix using the "matrix representation using parsimony"(MRP) method as implemented in Clann software (version 2.0.2) [59].
3) For each pseudoreplicate data set, supertrees were derived using the matrix representation with parsimony (MRP) method (Baum 1992; Ragan 1992).
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