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gene tree

Reconciliation and local gene tree rearrangement can be of mutual profit

Reconciliation and local gene tree rearrangement can be of mutual profit

... the gene trees can be ...binary gene tree can be due to sequence alignment problems, phylogenetic reconstruction artifacts ...a gene tree while preserving its strongly supported edges ...

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A Bayesian Approach for Fast and Accurate Gene Tree Reconstruction

A Bayesian Approach for Fast and Accurate Gene Tree Reconstruction

... the gene family model, through the use of the species tree in the prior, produces a posterior distribution that is far more concentrated than the ...Rapid Tree Search) appears to greatly help in ...

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ecceTERA: Comprehensive gene tree-species tree reconciliation using parsimony

ecceTERA: Comprehensive gene tree-species tree reconciliation using parsimony

... aware gene tree reconstruction and the computation of all parsimonious ...non-binary gene trees (manuscript in preparation, partial support for this feature is provided in the current release), the ...

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Accounting for gene tree uncertainty improves gene tree accuracy as well as duplications, transfers and losses predictions

Accounting for gene tree uncertainty improves gene tree accuracy as well as duplications, transfers and losses predictions

... the gene trees can be ...the gene tree can be due to sequence alignment problems or phylogenetic reconstruction artifacts such as long branch ...a gene tree while preserving its ...

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Efficient gene tree correction guided by genome evolution

Efficient gene tree correction guided by genome evolution

... of gene families, or by [ 46 ] in vertebrates Fig ...Compara gene families. An example is given for a species tree S of four fish species, a gene family of six genes (a gene is ...

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MaxTiC: Fast Ranking Of A Phylogenetic Tree By Maximum Time Consistency With Lateral Gene Transfers

MaxTiC: Fast Ranking Of A Phylogenetic Tree By Maximum Time Consistency With Lateral Gene Transfers

... and gene tree reconstructions to explain part of the ...associated gene tree, the definition of the time constraint could be relaxed to the first represented ancestor of A, and first ...

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Size-Constrained Tree Decompositions

Size-Constrained Tree Decompositions

... any tree T , there exists a minimum-size tree-decomposition of T with width at most 3, where each bag induces a connected ...of tree-decomposition with width 5. As an example, consider the ...

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Minimum Size Tree-decompositions

Minimum Size Tree-decompositions

... computing tree-decompositions. We consider the problem of computing tree-decompositions with mini- mum ...a tree- decomposition of the graph with one bag (the full ...a tree-decomposition of G ...

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Minimum Size Tree-Decompositions

Minimum Size Tree-Decompositions

... possible tree-decompositions of ...G. Tree-decompositions are the corner-stone of many dynamic programming algo- rithms for solving graph ...a tree-decomposition with width w and size n, the ...

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Catalogue of tree microhabitats

Catalogue of tree microhabitats

... The tree has broken off at the trunk level, in a living tree. The tree is still alive and is developing a secondary crown with parts of the trunk decaying near the injury: the tree combines ...

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Refining tree recruitment models

Refining tree recruitment models

... Refining tree recruitment models C. Calogeropoulos, D.F. Greene, C. Messier, and S. Brais Abstract: We used a micrometeorological dispersal model to simulate seed and seedling distributions derived from subcanopy ...

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Characterization of mango tree patchiness using a tree-segmentation/clustering approach

Characterization of mango tree patchiness using a tree-segmentation/clustering approach

... mango tree is characterized by strong phenological asynchronisms between and within trees, entailing ...the tree canopy develop vegetative GUs, others may remain in rest or produce inflorescences at the ...

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Tree-based ranking methods

Tree-based ranking methods

... Nicolas Vayatis ENS Cachan & UniverSud - CMLA UMR CNRS 8536 nicolas.vayatis@cmla.ens-cachan.fr Abstract—Recursive partitioning methods are among the most popular techniques in machine learning. The paper investigates ...

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On Low Tree-Depth Decompositions

On Low Tree-Depth Decompositions

... Low Tree-Depth Decomposition and Density of Shallow Minors, Shallow Topological Minors, and Shallow Immersions Classes with bounded expansion, which have been introduced in [48], may be viewed as a relaxation of ...

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Minimum Size Tree-Decompositions

Minimum Size Tree-Decompositions

... Abstract. Tree-Decompositions are the corner-stone of many dynamic programming algorithms for solving graph ...compute tree- decompositions with small ...computing tree-decompositions only exist for ...

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Fibrations of Tree Automata

Fibrations of Tree Automata

... between tree automata based on game ...synchronous tree function. By restricting to tree functions issued from maps on alphabets, this gives a fibration of tree ...

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Tree exploration with advice

Tree exploration with advice

... 1 Introduction For many network problems (such as leader election, minimum spanning tree, rendezvous, wakeup, broadcasting, etc.), the quality of the algorithmic solu- tions often depends on the amount of ...

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Multivalued component-tree filtering

Multivalued component-tree filtering

... Abstract—We introduce the new notion of multivalued component-tree, that extends the classical component-tree initially devoted to grey-level images, in the mathematical morphology framework. We prove that ...

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Anthropogenic and natural drivers of gene flow in a temperate wild fruit tree: a basis for conservation and breeding programs in apples

Anthropogenic and natural drivers of gene flow in a temperate wild fruit tree: a basis for conservation and breeding programs in apples

... well-differentiated gene pools with specific spatial distributions, whereas our previous sampling campaign led to the identification of only three clusters (Cornille et ...other tree species (Tzedakis et ...

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A tree without leaves

A tree without leaves

... Gilboa tree did not increase much in extent during growth. In this, the tree resembles the tree-ferns, and the cycads and palms with single trunks that occur today; but unlike these, it was unable to ...

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