Sentence examples for maximum parsimony framework from inspiring English sources

Under a maximum parsimony framework, we utilized new search technologies [ 40, 41] in the software TNT 1.1 [ 42, 43].

A phylogenetic hypothesis on the relationships among seed and nonseed plants was generated with this matrix in a maximum parsimony framework.

However, no clone sequence clusters resulted from rearrangement analysis as all combinations had the same cost in a maximum parsimony framework.

Sequences were reconstructed, translated, and compared by three different methods: a maximum parsimony framework using ACCTRAN and DELTRAN algorithms as implemented in PAUP* [ 51], and the codon substitution model [ 52] implemented in PAML 3.15 [ 19].

Phylogeny-based examples include methods that employ the maximum parsimony framework (e.g. Campillos et al., 2006; Cordero et al., 2008) and methods that rely on explicit evolutionary models of co-evolution (e.g. Barker et al., 2007).

DTL-reconciliation is generally performed in a maximum parsimony framework in which each event type has an associated user-defined cost and the objective is to find a reconciliation of minimum total cost.

Due to the close genetic relationships among the isolates studied here, phylogenetic analyses were done within an unweighted maximum parsimony (MP) framework [56].

Some approaches developed within a maximum parsimony or maximum likelihood framework can be found, for example, in Hein (1993); Jin et al. (2006a, 2006b, 2007); Dessimoz et al. (2008).

We chose the maximum parsimony approach in a cladistic framework because it is a character based classification method and, as such, was considered to be best adapted to meet our goals [ 35].

We propose a framework of maximum parsimony inference of haplotypes based on the search of a sparse dictionary, and we present a greedy method that can effectively infer the haplotype pairs given a set of xor-genotypes augmented by a small number of regular genotypes.

Finally, inclusion of the literature data within a supermatrix context also presents analytical problems in that molecular sequence data are arguably best analyzed within a likelihood framework whereas maximum parsimony is better suited for non-molecular data (despite the existence of models of evolution for such data; for example, [ 85, 86]).