Related papers: Tree balance indices: a comprehensive survey
Phylogenetic diversity is a popular measure for quantifying the biodiversity of a collection $Y$ of species, while phylogenetic diversity indices provide a way to apportion phylogenetic diversity to individual species. Typically, for some…
Tree shape statistics quantify some aspect of the shape of a phylogenetic tree. They are commonly used to compare reconstructed trees to evolutionary models and to find evidence of tree reconstruction bias. Historically, to find a useful…
A phylogenetic tree is an edge-weighted binary tree, with leaves labelled by a collection of species, that represents the evolutionary relationships between those species. For such a tree, a phylogenetic diversity index is a function that…
Many real-world classification problems are significantly class-imbalanced to detriment of the class of interest. The standard set of proper evaluation metrics is well-known but the usual assumption is that the test dataset imbalance equals…
Graphs are interesting structures: extremely useful to depict real-life problems, extremely easy to understand given a sketch, extremely complicated to represent formally, extremely complicated to compare. Phylogeny is the study of the…
Because biological processes can make different loci have different evolutionary histories, species tree estimation requires multiple loci from across the genome. While many processes can result in discord between gene trees and species…
Data analysis and machine learning have become an integrative part of the modern scientific methodology, providing automated techniques to predict further information based on observations. One of these classification and regression…
Measurement is a complicated but very necessary task. Many indices have been created in an effort to define the quality of knowledge produced but they have attracted strong criticism, having become synonymous with individualism, competition…
Allocation of research funding, as well as promotion and tenure decisions, are increasingly made using indicators and impact factors drawn from citations to published work. A debate among scientometricians about proper normalization of…
Phylogenies are commonly used to represent the evolutionary relationships between species, and often these phylogenies are equipped with edge lengths that indicate degrees of evolutionary difference. Given such a phylogeny, a popular…
The Leinster and Cobbold diversity index possesses a number of merits; in particular, it generalises many existing indices and defines an effective number. We present a scheme to quantify the contribution of richness, evenness, and…
There are various mathematical models proposed in the recent literature for estimating the h-index through bibliometric measures, such as number of articles (P) and citations received (C). These models have been previously empirically…
Diversity indices are useful single-number metrics for characterizing a complex distribution of a set of attributes across a population of interest. The utility of these different metrics or sets of metrics depend on the context and…
The fine grained classification of street trees is a crucial task for urban planning, streetscape management, and the assessment of urban ecosystem services. However, progress in this field has been hindered by the lack of large scale,…
We survey the definition and some elementary properties of real trees. There are no new results, as far as we know. One purpose is to give a number of different definitions and show the equivalence between them. We discuss also, for…
With the expansion of data availability, machine learning (ML) has achieved remarkable breakthroughs in both academia and industry. However, imbalanced data distributions are prevalent in various types of raw data and severely hinder the…
In recent years, there has been an effort to extend the classical notion of phylogenetic balance, originally defined in the context of trees, to networks. One of the most natural ways to do this is with the so-called $B_2$ index. In this…
We provide a comprehensive and critical review of the h-index and its most important modifications proposed in the literature, as well as of other similar indicators measuring research output and impact. Extensions of some of these indices…
Index structures are one of the most important tools that DBAs leverage to improve the performance of analytics and transactional workloads. However, building several indexes over large datasets can often become prohibitive and consume…
Bibliometric indicators such as journal impact factors, h-indices, and total citation counts are algorithmic artifacts that can be used in research evaluation and management. These artifacts have no meaning by themselves, but receive their…