Asymmetry of Configuration Space Induced by Unequal Crossover: Implications for a Mathematical Theory of Evolutionary Innovation

2000 ◽  
Vol 6 (1) ◽  
pp. 25-43 ◽  
Author(s):  
Max Shpak ◽  
Günter P. Wagner
Keyword(s):  
State Space ◽  
Configuration Space ◽  
Innovation Process ◽  
The State ◽  
Configuration Spaces ◽  
Unequal Crossover ◽  
Evolutionary Innovation ◽  
Space Closure ◽  
Regular Configuration ◽  
Morphological State

Evolution can be regarded as the exploration of genetic or morphological state space by populations. In traditional models of population and quantitative genetics, the state space can be formally represented as a configuration space with clearly defined concepts of neighborhood and distance, defined by the action of variational operators such as mutation and/or recombination. In this paper, we describe a process where no genetic configuration space closure (and hence, no non-arbitrary notion of distance and neighborhood) exists. The process is gene duplication by means of unequal crossover, which we regard as an example of an “innovation” process that changes the state space of the system rather than exploring a closed state space. We assert that such processes are qualitatively distinct from representations of the adaptation process, which occur on regular configuration spaces.

Hamilton’s Principle of Entropy Production for Creep and Relaxation Processes

2009 ◽  
Vol 132 (1) ◽  
Author(s):  
Q. Yang ◽  
Y. R. Liu ◽  
J. Q. Bao
Keyword(s):  
State Space ◽  
Entropy Production ◽  
Configuration Space ◽  
Internal Variable ◽  
Thermodynamic System ◽  
The State ◽  
Relaxation Processes ◽  
Kinetic Rate ◽  
Rate Laws ◽  
Affinity Space

In this paper, two subspaces of the state space of constrained equilibrium states for solids are proposed and addressed. One subspace, constrained affinity space, is conjugate-force space with fixed temperature and internal variable. It is revealed in this paper that the remarkable properties of the kinetic rate laws of scalar internal variables, established by Rice (1971, “Inelastic Constitutive Relations for Solids: An Internal Variable Theory and Its Application to Metal Plasticity,” J. Mech. Phys. Solids, 19, pp. 433–455) and elaborated by Yang (2005, “Normality Structures With Homogeneous Kinetic Rate Laws,” ASME J. Appl. Mech., 72, pp. 322–329; 2007, “Normality Structures With Thermodynamic Equilibrium Points,” ASME J. Appl. Mech., 74, pp. 965–971), are all located in constrained affinity space. Furthermore, the flow potential function monotonically increases along any ray from the origin in constrained affinity space. Another subspace, constrained configuration space, is the state space with fixed external variables. It is shown that the specific free and complementary energies monotonically decrease and increase, respectively, along the path of motion of the thermodynamic system of the material sample in constrained configuration space. For conservative conjugate forces, Hamilton’s action principle is established in constrained configuration space, and the action is the entropy production of the thermodynamic system in a time interval. The thermodynamic processes in constrained configuration space are just creep or relaxation processes of materials. The Hamilton principle can be considered as a fundamental principle of rheology.

scholarly journals Topological representation of cloth state for robot manipulation

2021 ◽  
Author(s):  
Fabio Strazzeri ◽  
Carme Torras
Keyword(s):  
State Space ◽  
Configuration Space ◽  
Common Ground ◽  
Low Complexity ◽  
Flag Manifold ◽  
Infinite Dimensional ◽  
Articulated Objects ◽  
Research Goal ◽  
State Graphs ◽  
Deformable Materials

AbstractForty years ago the notion of configuration space (C-space) revolutionised robot motion planning for rigid and articulated objects. Despite great progress, handling deformable materials has remained elusive because of their infinite-dimensional shape-state space. Finding low-complexity representations has become a pressing research goal. This work tries to make a tiny step in this direction by proposing a state representation for textiles relying on the C-space of some distinctive points. A stratification of the configuration space for n points in the cloth is derived from that of the flag manifold, and topological techniques to determine adjacencies in manipulation-centred state graphs are developed. Their algorithmic implementation permits obtaining cloth state–space representations of different granularities and tailored to particular purposes. An example of their usage to distinguish between cloth states having different manipulation affordances is provided. Suggestions on how the proposed state graphs can serve as a common ground to link the perception, planning and manipulation of textiles are also made.

scholarly journals Stringy canonical forms and binary geometries from associahedra, cyclohedra and generalized permutohedra

2020 ◽  
Vol 2020 (10) ◽  
Author(s):  
Song He ◽  
Zhenjie Li ◽  
Prashanth Raman ◽  
Chi Zhang
Keyword(s):  
Large Class ◽  
Configuration Space ◽  
Moduli Space ◽  
Cluster Algebras ◽  
Configuration Spaces ◽  
Minkowski Sum ◽  
Canonical Forms ◽  
Infinite Class ◽  
Special Cases ◽  
Generalized Associahedra

Abstract Stringy canonical forms are a class of integrals that provide α′-deformations of the canonical form of any polytopes. For generalized associahedra of finite-type cluster algebras, there exist completely rigid stringy integrals, whose configuration spaces are the so-called binary geometries, and for classical types are associated with (generalized) scattering of particles and strings. In this paper, we propose a large class of rigid stringy canonical forms for another class of polytopes, generalized permutohedra, which also include associahedra and cyclohedra as special cases (type An and Bn generalized associahedra). Remarkably, we find that the configuration spaces of such integrals are also binary geometries, which were suspected to exist for generalized associahedra only. For any generalized permutohedron that can be written as Minkowski sum of coordinate simplices, we show that its rigid stringy integral factorizes into products of lower integrals for massless poles at finite α′, and the configuration space is binary although the u equations take a more general form than those “perfect” ones for cluster cases. Moreover, we provide an infinite class of examples obtained by degenerations of type An and Bn integrals, which have perfect u equations as well. Our results provide yet another family of generalizations of the usual string integral and moduli space, whose physical interpretations remain to be explored.

Modeling of CCLP in koryo extract production

2020 ◽  
Vol 0 (0) ◽  
Author(s):  
Ji Chol ◽  
Ri Jun Il
Keyword(s):  
Process Control ◽  
Medical Care ◽  
State Space ◽  
State Space Model ◽  
The State ◽  
Space Model ◽  
Effective Components ◽  
Counter Current

Abstract The modeling of counter-current leaching plant (CCLP) in Koryo Extract Production is presented in this paper. Koryo medicine is a natural physic to be used for a diet and the medical care. The counter-current leaching method is mainly used for producing Koryo medicine. The purpose of the modeling in the previous works is to indicate the concentration distributions, and not to describe the model for the process control. In literature, there are no nearly the papers for modeling CCLP and especially not the presence of papers that have described the issue for extracting the effective components from the Koryo medicinal materials. First, this paper presents that CCLP can be shown like the equivalent process consisting of two tanks, where there is a shaking apparatus, respectively. It allows leachate to flow between two tanks. Then, this paper presents the principle model for CCLP and the state space model on based it. The accuracy of the model has been verified from experiments made at CCLP in the Koryo Extract Production at the Gang Gyi Koryo Manufacture Factory.

Cylindrically Anisotropic Tubes Containing a Line Dislocation

2006 ◽  
Author(s):  
Chung-Hao Wang
Keyword(s):  
State Space ◽  
Dislocation Line ◽  
Longitudinal Axis ◽  
The State ◽  
Fourier Series Expansion ◽  
General Solutions ◽  
Mixed Dislocation ◽  
Line Dislocation ◽  
Space Formulation ◽  
Cylindrically Anisotropic

An analytical solution of the problem of a cylindrically anisotropic tube which contains a line dislocation is presented in this study. The state space formulation in conjunction with the eigenstrain theory is proved to be a feasible and systematic methodology to analyze a tube with the existence of dislocations. The state space formulation which expediently groups the displacements and the cylindrical surface traction can construct a governing differential matrix equation. By using Fourier series expansion and the well developed theory of matrix algebra, the asymmetrical solutions are not only explicit but also compact in form. The dislocation considered in this study is a kind of mixed dislocation which is the combination of edge dislocations and a screw dislocation and the dislocation line is parallel to the longitudinal axis of the tube. The degeneracy of the eigen relation and the technique to determine the inverse of a singular matrix are thoroughly discussed, so that the general solutions can be applied to the case of isotropic tubes, which is one of the novel features of this research. The results of isotropic problems, which are belong to the general solutions, are compared with the well-established expressions in the literature. The satisfied correspondences of these comparisons indicate the validness of this study. A cylindrically orthotropic tube is also investigated as an example and the numerical results for the displacements and tangential stress on the outer surface are displayed. The effects on surface stresses due to the existence of a dislocation appear to have a characteristic of localized phenomenon.

scholarly journals Novel domain expansion methods to improve the computational efficiency of the Chemical Master Equation solution for large biological networks

2020 ◽  
Vol 21 (1) ◽  
Author(s):  
Rahul Kosarwal ◽  
Don Kulasiri ◽  
Sandhya Samarasinghe
Keyword(s):  
Master Equation ◽  
State Space ◽  
Performance Management ◽  
Numerical Solutions ◽  
De Novo ◽  
Exact Analytical Solution ◽  
Chemical Master Equation ◽  
The State ◽  
Biochemical System ◽  
Biochemical Systems

Abstract Background Numerical solutions of the chemical master equation (CME) are important for understanding the stochasticity of biochemical systems. However, solving CMEs is a formidable task. This task is complicated due to the nonlinear nature of the reactions and the size of the networks which result in different realizations. Most importantly, the exponential growth of the size of the state-space, with respect to the number of different species in the system makes this a challenging assignment. When the biochemical system has a large number of variables, the CME solution becomes intractable. We introduce the intelligent state projection (ISP) method to use in the stochastic analysis of these systems. For any biochemical reaction network, it is important to capture more than one moment: this allows one to describe the system’s dynamic behaviour. ISP is based on a state-space search and the data structure standards of artificial intelligence (AI). It can be used to explore and update the states of a biochemical system. To support the expansion in ISP, we also develop a Bayesian likelihood node projection (BLNP) function to predict the likelihood of the states. Results To demonstrate the acceptability and effectiveness of our method, we apply the ISP method to several biological models discussed in prior literature. The results of our computational experiments reveal that the ISP method is effective both in terms of the speed and accuracy of the expansion, and the accuracy of the solution. This method also provides a better understanding of the state-space of the system in terms of blueprint patterns. Conclusions The ISP is the de-novo method which addresses both accuracy and performance problems for CME solutions. It systematically expands the projection space based on predefined inputs. This ensures accuracy in the approximation and an exact analytical solution for the time of interest. The ISP was more effective both in predicting the behavior of the state-space of the system and in performance management, which is a vital step towards modeling large biochemical systems.

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