Related papers: On Injective Embeddings of Tree Patterns

In this note we consider ternary trees naturally embedded in the plane in a deterministic way such that the root has position zero, or in other words label zero, and the children of a node with position $j$ have positions $j-1$, $j$, and…

The number of embeddings of a partially ordered set $S$ in a partially ordered set $T$ is the number of subposets of $T$ isomorphic to $S$. If both, $S$ and $T$, have only one unique maximal element, we define good embeddings as those in…

Metric learning has the aim to improve classification accuracy by learning a distance measure which brings data points from the same class closer together and pushes data points from different classes further apart. Recent research has…

We study the problem of learning a node-labeled tree given independent traces from an appropriately defined deletion channel. This problem, tree trace reconstruction, generalizes string trace reconstruction, which corresponds to the tree…

We consider the phylogenetic tree reconstruction problem with insertions and deletions (indels). Phylogenetic algorithms proceed under a model where sequences evolve down the model tree, and given sequences at the leaves, the problem is to…

In this paper, we propose DeepTree, a novel method for modeling trees based on learning developmental rules for branching structures instead of manually defining them. We call our deep neural model situated latent because its behavior is…

Finite metric trees are known to have strict 1-negative type. In this paper we introduce a new family of inequalities that quantify the extent of the "strictness" of the 1-negative type inequalities for finite metric trees. These…

We address an open question of Francis and Steel about phylogenetic networks and trees. They give a polynomial time algorithm to decide if a phylogenetic network, N, is tree-based and pose the problem: given a fixed tree T and network N, is…

Programs that manipulate tree-shaped data structures often require complex, specialized proofs that are difficult to generalize and automate. This paper introduces a unified, foundational approach to verifying such programs. Central to our…

Topological phylogenetic trees can be assigned edge weights in several natural ways, highlighting different aspects of the tree. Here the rooted triple and quartet metrizations are introduced, and applied to formulate novel fast methods of…

For a pair consisting of a gene tree and a species tree, the ancestral configurations at an internal node of the species tree are the distinct sets of gene lineages that can be present at that node. Ancestral configurations appear in…

For a labelled tree on the vertex set $[n]:=\{1,2,..., n\}$, define the direction of each edge $ij$ to be $i\to j$ if $i<j$. The indegree sequence of $T$ can be considered as a partition $\lambda \vdash n-1$. The enumeration of trees with a…

Model trees provide an appealing way to perform interpretable machine learning for both classification and regression problems. In contrast to ``classic'' decision trees with constant values in their leaves, model trees can use linear…

The paper attempts to validate the effectiveness of tree classifiers to classify tabla strokes especially the ones which are overlapping in nature. It uses decision tree, ID3 and random forest as classifiers. A custom made data sets of 650…

This paper reduces discontinuous parsing to sequence labeling. It first shows that existing reductions for constituent parsing as labeling do not support discontinuities. Second, it fills this gap and proposes to encode tree discontinuities…

Generalized linear and additive models are very efficient regression tools but the selection of relevant terms becomes difficult if higher order interactions are needed. In contrast, tree-based methods also known as recursive partitioning…

We investigate the nearest common ancestor (NCA) function in rooted trees. As the main conceptual contribution, the paper introduces universal trees for the NCA function: For a given family of rooted trees, an NCA-universal tree $S$ is a…

Testing the validity of probabilistic models containing unmeasured (hidden) variables is shown to be a hard task. We show that the task of testing whether models are structurally incompatible with the data at hand, requires an exponential…

Estimating phylogenetic trees is an important problem in evolutionary biology, environmental policy and medicine. Although trees are estimated, their uncertainties are discarded by mathematicians working in tree space. Here we explicitly…

In this paper, we consider a tree-structured data model used in many commercial databases like Dremel, F1, JSON stores. We define identity and referential constraints within each tree-structured record. The query language is a variant of…