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A popular line of research in evolutionary biology is the use of time-calibrated phylogenies for the inference of diversification processes. This requires computing the likelihood of a given ultrametric tree as the reconstructed tree…

Populations and Evolution · Quantitative Biology 2013-01-24 Amaury Lambert , Hélène Morlon , Rampal S. Etienne

We present results from a numerical code implementing a new method to solve the master equations describing the evolution of linear perturbations in a spherically symmetric but inhomogeneous background. This method can be used to simulate…

Cosmology and Nongalactic Astrophysics · Physics 2014-08-20 Sean February , Julien Larena , Chris Clarkson , Denis Pollney

Learning complex physical dynamics purely from data is challenging due to the intrinsic properties of systems to be satisfied. Incorporating physics-informed priors, such as in Hamiltonian Neural Networks (HNNs), achieves high-precision…

Machine Learning · Computer Science 2024-10-10 Zijie Huang , Wanjia Zhao , Jingdong Gao , Ziniu Hu , Xiao Luo , Yadi Cao , Yuanzhou Chen , Yizhou Sun , Wei Wang

Reticulate evolutionary processes result in phylogenetic histories that cannot be modeled using a tree topology. Here, we apply methods from topological data analysis to molecular sequence data with reticulations. Using a simple example, we…

Quantitative Methods · Quantitative Biology 2015-11-05 Kevin Emmett , Raul Rabadan

We calculate the primordial trispectrum of curvature perturbation in quasi-single field inflation, with general sound speeds for both the inflaton and the massive scalar. Special attention is paid to various soft limits of the trispectrum,…

High Energy Physics - Theory · Physics 2018-05-22 Xingang Chen , Wan Zhen Chua , Yuxun Guo , Yi Wang , Zhong-Zhi Xianyu , Tianyou Xie

These lecture notes introduce analytical tools, methods and results describing the growth of cosmological structure beyond the linear regime. The presentation is focused on the single flow regime of the Vlasov-Poisson equation describing…

Cosmology and Nongalactic Astrophysics · Physics 2013-12-03 Francis Bernardeau

We calculate for the first time the third-order spectrum of gravitational waves sourced by the amplified scalar field perturbations during inflation using the in-in formalism, and discuss the conditions for the third-order spectrum to be…

General Relativity and Quantum Cosmology · Physics 2025-05-16 Cheng-Jun Fang , Zhi-Zhang Peng , Han-Wen Hu , Zong-Kuan Guo

We consider a dark energy fluid with arbitrary sound speed and equation of state and discuss the effect of its clustering on the cold dark matter distribution at the non-linear level. We write the continuity, Euler and Poisson equations for…

Cosmology and Nongalactic Astrophysics · Physics 2015-03-19 Stefano Anselmi , Guillermo Ballesteros , Massimo Pietroni

The evolutionary processes of complex systems contain critical information regarding their functional characteristics. The generation time of edges provides insights into the historical evolution of various networked complex systems, such…

Artificial Intelligence · Computer Science 2025-01-14 En Xu , Can Rong , Jingtao Ding , Yong Li

We study how well perturbative forward modeling can constrain cosmological parameters compared to conventional analyses. We exploit the fact that in perturbation theory the field-level posterior can be computed analytically in the limit of…

Cosmology and Nongalactic Astrophysics · Physics 2024-01-31 Giovanni Cabass , Marko Simonović , Matias Zaldarriaga

We develop a code to produce the power spectrum in redshift space based on standard perturbation theory (SPT) at 1-loop order. The code can be applied to a wide range of modified gravity and dark energy models using a recently proposed…

Cosmology and Nongalactic Astrophysics · Physics 2016-08-31 Benjamin Bose , Kazuya Koyama

We derive a generalized equation for the evolution of tensor perturbations in a cosmological background, taking into account higher-curvature contributions and a tree-level coupling to the dilaton in the string frame. The equation is…

General Relativity and Quantum Cosmology · Physics 2009-10-30 M. Gasperini

The spectral renormalization method was introduced by Ablowitz and Musslimani in 2005, [Opt. Lett. 30, pp. 2140-2142] as an effective way to numerically compute (time-independent) bound states for certain nonlinear boundary value problems.…

Pattern Formation and Solitons · Physics 2017-10-11 Justin T. Cole , Ziad H. Musslimani

The usual procedure of including a finite number of vertices in Non Perturbative Renormalization Group equations in order to obtain $n$-point correlation functions at finite momenta is analyzed. This is done by exploiting a general method…

High Energy Physics - Theory · Physics 2008-11-26 Diego Guerra , Ramon Mendez-Galain , Nicolas Wschebor

The analysis of nonlinear spectroscopy, widely used to study the dynamics and structures of condensed-phase matter, typically employs a perturbative approach noticing the weak interaction between the laser and the matter of interest.…

Optics · Physics 2022-06-23 Xue Zhang , Hui Dong

The Large-Scale Structure (LSS) of the universe has the potential to provide decisive answers to the remaining open questions in cosmology. Early attempts at modelling it analytically focused on using perturbation theory. However,…

Cosmology and Nongalactic Astrophysics · Physics 2021-05-19 Theodore Steele , Tobias Baldauf

We consider time-dependent perturbations which are relatively bounded with respect to the square root of an unperturbed Hamiltonian operator, and whose commutator with the latter is controlled by the full perturbed Hamiltonian. The…

Mathematical Physics · Physics 2022-06-07 Giovanna Marcelli

A new approach to cosmological perturbation theory has been recently introduced by Bartelmann et al., relying on nonequilibrium statistical theory of classical particles, and treating the gravitational interaction perturbatively. They…

Cosmology and Nongalactic Astrophysics · Physics 2015-05-20 Yacine Ali-Haïmoud

Modularity is a very widely used measure of the level of clustering or community structure in networks. Here we consider a recent generalisation of the definition of modularity to temporal graphs, whose edge-sets change over discrete…

Combinatorics · Mathematics 2025-07-24 Vilhelm Agdur , Jessica Enright , Laura Larios-Jones , Kitty Meeks , Fiona Skerman , Ella Yates

Calculations of high-energy processes involving the production of a large number of particles in weakly-coupled quantum field theories have previously signaled the need for novel non-perturbative behavior or even new physical phenomena. In…

High Energy Physics - Phenomenology · Physics 2022-04-13 Sebastian Schenk
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