Related papers: Evolution systems: A framework for studying generi…
Phylogenetics is the study of the evolutionary relationships between organisms. One of the main challenges in the field is to take biological data for a group of organisms and to infer an evolutionary tree, a graph that represents these…
Some personal recollections on the introduction of `abstract proof systems' as a framework for formulating syntax-independent, general results about rule derivability and admissibility. With a particular eye on the inspiration I owe to Roel…
The evolution of complexity has been a central theme for Biology and Artificial Life (Bonner, 1988; Bedau et al., 2000). Complexification has been interpreted in different ways: as a process of diversification between evolving units…
The averaging method provides a powerful tool for studying evolution in near-integrable systems. Existence of separatrices in the phase space of the underlying integrable system is an obstacle for application of standard results that…
An automorphism defined on an evolution algebra can provide both a finite number and an infinite number of evolution operators on it. This question is dealt with in the paper, as well as others more related to the evolution operators of…
Abstraction is the process of extracting the essential features from raw data while ignoring irrelevant details. It is well known that abstraction emerges with depth in neural networks, where deep layers capture abstract characteristics of…
To classify is to put things in meaningful groups, but the criteria for doing so can be problematic. Study of evolution of classification includes ontogenetic analysis of change in classification over time. We present an empirical analysis…
This is an overview (in french) of the Theory of Species for a general audience. Basic notions are introduced in a non too technical manner, with an explanation of why should one approach the notion of discrete structures in this particular…
Biological systems are generally complicated and/or complex. In the former approach, one sets up a model with a large number of parameters to describe the system in detail. The latter approach focuses on understanding the universal aspects…
Many complex systems satisfy a set of constraints on their degrees of freedom, and at the same time, they are able to work and adapt to different conditions. Here, we describe the emergence of this ability in a simplified model in which the…
We present several philosophical ideas emerging from the studies of complex systems. We make a brief introduction to the basic concepts of complex systems, for then defining "abstraction levels". These are useful for representing…
Evolution is often understood through genetic mutations driving changes in an organism's fitness, but there is potential to extend this understanding beyond the genetic code. We propose that natural products - complex molecules central to…
Region-based type systems are a powerful tool for various kinds of program analysis. We introduce a new inference algorithm for region types based on an abstract notion of environment transformation. It analyzes the code of a method only…
Component systems - ensembles of realizations built from a shared repertoire of modular parts - are ubiquitous in biological, ecological, technological, and socio-cultural domains. From genomes to texts, cities, and software, these systems…
A common assumption in evolutionary thought is that adaptation drives an increase in biological complexity. However, the rules governing evolution of complexity appear more nuanced. Evolution is deeply connected to learning, where…
Open-ended evolution (OEE) is relevant to a variety of biological, artificial and technological systems, but has been challenging to reproduce in silico. Most theoretical efforts focus on key aspects of open-ended evolution as it appears in…
In this paper, we address the problem of change in an abstract argumentation system. We focus on a particular change: the addition of a new argument which interacts with previous arguments. We study the impact of such an addition on the…
The relativistic formulation of abstract evolution equations is introduced. The corresponding logarithmic representation is shown to exist without assuming the invertible property of evolution operators. Consequently, by means of the…
The concept of (auto)catalytic systems has become a cornerstone in understanding evolutionary processes in various fields. The common ground is the observation that for the production of new species/goods/ideas/elements etc. the…
We propose a novel definition of life in terms of which its emergence in the universe is expected, and its ever-creative open-ended evolution is entailed by no law. Living organisms are Kantian Wholes that achieve Catalytic Closure,…