相关论文: A Theory of Taxonomy

Understanding the patterns and processes of diversification of life in the planet is a key challenge of science. The Tree of Life represents such diversification processes through the evolutionary relationships among the different taxa, and…

A common framework is provided that comprises classical ordinal item response models as the cumulative, sequential and adjacent categories models as well as nominal response models and item response tree models. The taxonomy is based on the…

The cellular tree classifier model addresses a fundamental problem in the design of classifiers for a parallel or distributed computing world: Given a data set, is it sufficient to apply a majority rule for classification, or shall one…

Recent attacks of various viruses with having deep and extensive impact at a global scale has warranted that microbiome be studied extensively and in a robust analytic framework. Microbiome typically refers to the collective genomes of such…

The human microbiome is the ensemble of genes in the microbes that live inside and on the surface of humans. Because microbial sequencing information is now much easier to come by than phenotypic information, there has been an explosion of…

We present a soundness theorem for a dependent type theory with context constants with respect to an indexed category of (finite, abstract) simplical complexes. The point of interest for computer science is that this category can be seen to…

The study of networks has grown into a substantial interdisciplinary endeavour that encompasses myriad disciplines in the natural, social, and information sciences. Here we introduce a framework for constructing taxonomies of networks based…

Ecosystems are commonly conceptualized as networks of interacting species. However, partitioning natural diversity of organisms into discrete units is notoriously problematic, and mounting experimental evidence raises the intriguing…

The discipline of `theoretical biology' has been developing from its inception several decades ago almost in parallel with the advances in biology, so much so that the latter is often considered to be almost exclusively an empirical…

In E-commerce, it is a common practice to organize the product catalog using product taxonomy. This enables the buyer to easily locate the item they are looking for and also to explore various items available under a category. Product…

A pattern of a sequence is a sequence of integer indices with each index describing the order of first occurrence of the respective symbol in the original sequence. In a recent paper, tight general bounds on the block entropy of patterns of…

Automatic identification of plant specimens from amateur photographs could improve species range maps, thus supporting ecosystems research as well as conservation efforts. However, classifying plant specimens based on image data alone is…

Clustering is a common technique for statistical data analysis, which is used in many fields, including machine learning, data mining, pattern recognition, image analysis and bioinformatics. Clustering is the process of grouping similar…

A vocabulary is a list of words designating subsets from a grand set X. We model a vocabulary as a partition of X and study the aggregation of individual vocabularies into a collective one. We characterize aggregation rules when X is…

Categories such as animal or furniture are acquired at an early age and play an important role in processing, organizing, and communicating world knowledge. Categories exist across cultures: they allow to efficiently represent the…

This paper addresses the problem of Generalized Category Discovery (GCD) under a long-tailed distribution, which involves discovering novel categories in an unlabelled dataset using knowledge from a set of labelled categories. Existing…

We consider biological individuality in terms of information theoretic and graphical principles. Our purpose is to extract through an algorithmic decomposition system-environment boundaries supporting individuality. We infer or detect…

Since time immemorial, people have been looking for ways to organize scientific knowledge into some systems to facilitate search and discovery of new ideas. The problem was partially solved in the pre-Internet era using library…

Understanding how genes interact and relate to each other is a fundamental question in biology. However, current practices for describing these relationships, such as drawing diagrams or graphs in a somewhat arbitrary manner, limit our…

Progressive filtering is a simple way to perform hierarchical classification, inspired by the behavior that most humans put into practice while attempting to categorize an item according to an underlying taxonomy. Each node of the taxonomy…