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Andrew W. Baggaley

Publications and source records attributed to Andrew W. Baggaley.

At least 19 recordsLinked to original sources

Reaction-diffusion models of invasive tree pest spread: quantifying the expansion of oak processionary moth in the UK

UK woodlands, forests, and urban treescapes are under threat from invasive species, exacerbated by climate change, trade, and transport. Invasive tree pests debilitate their host and disrupt forest ecosystems, thus it is imperative to quantitatively model and predict their spread. Addressing this, we model the spread of an invasive pest using a spatiotemporal reaction-diffusion equation, representing the spatial distribution as a population density field. We solve this intractable equation numerically and, from the solution, we determine first arrival times of the pest at locations in the field. The adopted model permits us to obtain the expansion rate of pest spread directly from the model parameters, which we infer in the Bayesian paradigm, using a Markov chain Monte Carlo scheme. We apply our framework to the ongoing spread of oak processionary moth in the UK, an outbreak which continues to grow despite management efforts. We demonstrate that our approach effectively captures the spread of the pest and that this has occurred at a non-constant expansion rate. The proposed framework is a powerful tool for quantitatively modelling the spread of an invasive tree pest and could underpin future prediction and management approaches.

q-bio.PE

Crow instability of vortex lines in dipolar superfluids

In classical inviscid fluids, antiparallel vortices perturbed by Kelvin waves exhibit the Crow instability, where the mutual interaction of the Kelvin modes renders them dynamically unstable. This results in the approach and reconnection of the vortices, leading to a cascaded decay into ever-smaller vortex loops. Through mean-field simulations we study the Crow instability of quantum vortex lines in a superfluid whose atoms are subject to the anisotropic, long-ranged dipole-dipole interaction. We observe that the direction of dipole polarization plays a crucial role in determining the dynamically favored Kelvin modes. The subsequent rate of the instability is linked to the mediation of the vortex curvature by the effective dipole-dipole interaction between the vortices themselves. The vortex curvature is strongly suppressed and modes of lower wavenumber are preferred when the dipole polarization is parallel to the vortices, whereas the curvature is maximized for polarizations along the vortices' separation axis. For polarizations along the binormal axis, modes of higher wavenumber are favorable but the instability rate is considerably inhibited. This paves the way to a deeper understanding of vortex reconnections, vortex loop cascades and turbulence in dipolar superfluids.

cond-mat.quant-gas

Vortex Avalanches and Collective Motion in Neutron Stars

We simulate the dynamics of about 600 quantum vortices in a spinning-down cylindrical container using a Gross--Pitaevskii model. For the first time, we find convincing spatial-temporal evidence of avalanching behaviour resulting from vortex depinning and collective motion. During a typical avalanche, about 10 to 20 vortices exit the container in a short period, producing a glitch in the superfluid angular momentum and a localised void in the vorticity. After the glitch, vortices continue to depin and circulate around the vorticity void in a similar manner to that seen in previous point-vortex simulations. We present evidence of collective vortex motion throughout this avalanche process. We also show that the effective Magnus force can be used to predict when and where avalanches will occur. Lastly, we comment on the challenge of extrapolating these results to conditions in real neutron stars, which contain many orders of magnitude more vortices.

astro-ph.HE

Cross-Component Energy Transfer in Superfluid Helium-4

The reciprocal energy and enstrophy transfers between normal fluid and superfluid components dictate the overall dynamics of superfluid $^4$He including the generation, evolution and coupling of coherent structures, the distribution of energy among lengthscales, and the decay of turbulence. To better understand the essential ingredients of this interaction, we employ a numerical two-way model which self-consistently accounts for the back-reaction of the superfluid vortex lines onto the normal fluid. Here we focus on a prototypical laminar (non-turbulent) vortex configuration which is simple enough to clearly relate the geometry of the vortex line to energy injection and dissipation to/from the normal fluid: a Kelvin wave excitation on two vortex anti-vortex pairs evolving in (a) an initially quiescent normal fluid, and (b) an imposed counterflow. In (a), the superfluid injects energy and vorticity in the normal fluid. In (b), the superfluid gains energy from the normal fluid via the Donnelly-Glaberson instability.

physics.flu-dyn

Vortex pair dynamics in three-dimensional homogeneous dipolar superfluids

The static and dynamic properties of vortices in dipolar Bose-Einstein condensates (dBECs) can be considerably modified relative to their nondipolar counterparts by the anisotropic and long-ranged nature of the dipole-dipole interaction. Working in a uniform dBEC, we analyze the structure of single vortices and the dynamics of vortex pairs, investigating the deviations from the nondipolar paradigm. For a straight vortex line, we find that the induced dipolar interaction potential is axially anisotropic when the dipole moments have a nonzero projection orthogonal to the vortex line. This results in a corresponding elongation of the vortex core along this projection as well as an anisotropic superfluid phase and enhanced compressibility in the vicinity of the vortex core. Consequently, the trajectories of like-signed vortex pairs are described by a family of elliptical and oval-like curves rather than the familiar circular orbits. Similarly for opposite-signed vortex pairs their translation speeds along the binormal are found to be dipole interaction-dependent. We expect that these findings will shed light on the underlying mechanisms of many-vortex phenomena in dBECs such as quantum turbulence, vortex reconnections, and vortex lattices.

cond-mat.quant-gas

Vortex depinning in a two-dimensional superfluid

We employ the Gross--Pitaevskii theory to model a quantized vortex depinning from a small obstacle in a two-dimensional superfluid due to an imposed background superfluid flow. We find that, when the flow's velocity exceeds a critical value, the vortex drifts orthogonally to the flow before subsequently moving parallel to it away from the pinning site. The motion of the vortex around the pinning site is also accompanied by an emission of a spiral-shaped sound pulse. Through simulations, we present a phase diagram of the critical flow velocity for vortex depinning together with an empirical formula that illustrates how the critical velocity increases with the height and width of the pinning site. By employing a variety of choices of initial and boundary conditions, we are able to obtain lower and upper bounds on the critical velocity and demonstrate the robustness of these results.

cond-mat.quant-gas

Accelerating Bayesian inference for stochastic epidemic models using incidence data

We consider the case of performing Bayesian inference for stochastic epidemic compartment models, using incomplete time course data consisting of incidence counts that are either the number of new infections or removals in time intervals of fixed length. We eschew the most natural Markov jump process representation for reasons of computational efficiency, and focus on a stochastic differential equation representation. This is further approximated to give a tractable Gaussian process, that is, the linear noise approximation (LNA). Unless the observation model linking the LNA to data is both linear and Gaussian, the observed data likelihood remains intractable. It is in this setting that we consider two approaches for marginalising over the latent process: a correlated pseudo-marginal method and analytic marginalisation via a Gaussian approximation of the observation model. We compare and contrast these approaches using synthetic data before applying the best performing method to real data consisting of removal incidence of oak processionary moth nests in Richmond Park, London. Our approach further allows comparison between various competing compartment models.

stat.CO

Vorticity Locking and Pressure Dynamics in Finite-Temperature Superfluid Turbulence

We present a numerical study of finite-temperature superfluid turbulence using the vortex filament model for superfluid helium. We examine the phenomenon of vorticity locking between the normal and superfluid components across a wide range of temperatures, using two different structures of external normal fluid drive. We show that vorticity locking increases with temperature leading to the superfluid flow being more influenced by the characteristics of the normal fluid. This also results in stronger superfluid polarization and turbulent intermittency. We also examine how these properties influence the pressure field and attempt to verify a long-standing $P_k\propto k^{-7/3}$ theoretical quantum signature within the spatial pressure spectrum.

physics.flu-dyn

Dissipation anomaly in a turbulent quantum fluid

When the intensity of turbulence is increased (by increasing the Reynolds number, e.g. by reducing the viscosity of the fluid), the rate of the dissipation of kinetic energy decreases but does not tend asymptotically to zero: it levels off to a non-zero constant as smaller and smaller vortical flow structures are generated. This fundamental property, called the dissipation anomaly, is sometimes referred to as the zeroth law of turbulence. The question of what happens in the limit of vanishing viscosity (purely hypothetical in classical fluids) acquires a particular physical significance in the context of liquid helium, a quantum fluid which becomes effectively inviscid at low temperatures achievable in the laboratory. By performing numerical simulations and identifying the superfluid Reynolds number, here we show evidence for a superfluid analog to the classical dissipation anomaly. Our numerics indeed show that as the superfluid Reynolds number increases, smaller and smaller structures are generated on the quantized vortex lines on which the superfluid vorticity is confined, balancing the effect of weaker and weaker dissipation.

physics.flu-dyn

A new self-consistent approach of quantum turbulence in superfluid helium

We present the Fully cOUpled loCAl model of sUperfLuid Turbulence (FOUCAULT) that describes the dynamics of finite temperature superfluids. The superfluid component is described by the vortex filament method while the normal fluid is governed by a modified Navier-Stokes equation. The superfluid vortex lines and normal fluid components are fully coupled in a self-consistent manner by the friction force, which induces local disturbances in the normal fluid in the vicinity of vortex lines. The main focus of this work is the numerical scheme for distributing the friction force to the mesh points where the normal fluid is defined and for evaluating the velocity of the normalfluid on the Lagrangian discretization points along the vortex lines. In particular, we show that if this numerical scheme is not careful enough, spurious results may occur. The new scheme which we propose to overcome these difficulties is based on physical principles. Finally, we apply the new method to the problem of the motion of a superfluid vortex ring in a stationary normal fluid and in a turbulent normal fluid.

physics.flu-dyn

Coarse-grained pressure dynamics in superfluid turbulence

Quantum mechanics places significant restrictions on the hydrodynamics of superfluid flows. Despite this it has been observed that turbulence in superfluids can, in a statistical sense, share many of the properties of its classical brethren; coherent bundles of superfluid vortices are often invoked as an important feature leading to this quasi-classical behavior. A recent experimental study [E. Rusaouen, B. Rousset, and P.-E. Roche, EPL, {\bf 118}, 1, 14005, (2017)] inferred the presence of these bundles through intermittency in the pressure field, however direct visualization of the quantized vortices to corroborate this finding was not possible. In this work, we performed detailed numerical simulations of superfluid turbulence at the level of individual quantized vortices through the vortex filament model. Through course-graining of the turbulent fields, we find compelling evidence supporting these conclusions at low temperature. Moreover, elementary simulations of an isolated bundle show that the number of vortices inside a bundle can be directly inferred from the magnitude of the pressure dip, with good theoretical agreement derived from the HVBK equations. Full simulations of superfluid turbulence show strong spatial correlations between course-grained vorticity and low pressure regions, with intermittent vortex bundles appearing as deviations from the underlying Maxwellian (vorticity) and Gaussian (pressure) distributions. Finally, simulations of a decaying random tangle in an ultra-quantum regime show a unique fingerprint in the evolution of the pressure distribution, which we argue can be fully understood using the HVBK framework.

physics.flu-dyn

Quantification of the morphological characteristics of hESC colonies

The maintenance of the pluripotent state in human embryonic stem cells (hESCs) is critical for further application in regenerative medicine, drug testing and studies of fundamental biology. Currently, the selection of the best quality cells and colonies for propagation is typically performed by eye, in terms of the displayed morphological features, such as prominent/abundant nucleoli and a colony with a tightly packed appearance and a well-defined edge. Using image analysis and computational tools, we precisely quantify these properties using phase-contrast images of hESC colonies of different sizes (0.1 -- 1.1$\, \text{mm}^2$) during days 2, 3 and 4 after plating. Our analyses reveal noticeable differences in their structure influenced directly by the colony area $A$. Large colonies ($A > 0.6 \, \text{mm}^2$) have cells with smaller nuclei and a short intercellular distance when compared with small colonies ($A < 0.2 \, \text{mm}^2$). The gaps between the cells, which are present in small and medium sized colonies with $A \le 0.6 \, \text{mm}^2$, disappear in large colonies ($A > 0.6 \, \text{mm}^2$) due to the proliferation of the cells in the bulk. This increases the colony density and the number of nearest neighbours. We also detect the self-organisation of cells in the colonies where newly divided (smallest) cells cluster together in patches, separated from larger cells at the final stages of the cell cycle. This might influence directly cell-to-cell interactions and the community effects within the colonies since the segregation induced by size differences allows the interchange of neighbours as the cells proliferate and the colony grows. Our findings are relevant to efforts to determine the quality of hESC colonies and establish colony characteristics database.

q-bio.QM

Crossover from interaction to driven regimes in quantum vortex reconnections

Reconnections of coherent filamentary structures play a key role in the dynamics of fluids, redistributing energy and helicity among the length scales, triggering dissipative effects and inducing fine-scale mixing. Unlike ordinary (classical) fluids where vorticity is a continuous field, in superfluid helium and in atomic Bose-Einstein condensates (BECs) vorticity takes the form of isolated quantised vortex lines, which are conceptually easier to study. New experimental techniques now allow visualisation of individual vortex reconnections in helium and condensates. It has long being suspected that reconnections obey universal laws, particularly a universal scaling with time of the minimum distance between vortices $δ$. Here we perform a comprehensive analysis of this scaling across a range of scenarios relevant to superfluid helium and trapped condensates, combining our own numerical simulations with the previous results in the literature. We reveal that the scaling exhibit two distinct fundamental regimes: a $δ\sim t^{1/2}$ scaling arising from the mutual interaction of the reconnecting strands and a $δ\sim t$ scaling when extrinsic factors drive the individual vortices.

cond-mat.quant-gas

Inviscid diffusion of vorticity in low temperature superfluid helium

We numerically study the spatial spreading of quantized vortex lines in low temperature liquid helium. The vortex lines, initially concentrated in a small region, diffuse into the surrounding vortex-free helium, a situation which is typical of many experiments. We find that this spreading, which occurs in the absence of viscosity, emerges from the interactions between the vortex lines, and can be interpreted as a diffusion process with effective coefficient equal to approximately 0.5$κ$ where $κ$ is the quantum of circulation.

physics.flu-dyn

Diffusion of Quantum Vortices

We determine the evolution of a cluster of quantum vortices initially placed at the centre of a larger vortex-free region. We find that the cluster spreads out spatially. This spreading motion consists of two effects: the rapid evaporation of vortex dipoles from the cluster and the slow expansion of the cluster itself. The latter is akin to a diffusion process controlled by the quantum of circulation. Numerical simulations of the Gross-Pitaevskii equation show that this phenomenon is qualitatively unaffected by the presence of sound waves, vortex annihilations, and boundaries, and it should be possible to create it in the laboratory.

physics.flu-dyn

Decay of homogeneous two dimensional quantum turbulence

We numerically simulate the free decay of two-dimensional quantum turbulence in a large, homogeneous Bose-Einstein condensate. The large number of vortices, the uniformity of the density profile and the absence of boundaries (where vortices can drift out of the condensate) isolate the annihilation of vortex-antivortex pairs as the only mechanism which reduces the number of vortices, $\Nv$, during the turbulence decay. The results clearly reveal that vortex annihilation is a four-vortex process, confirming the decay law $\Nv \sim t^{-1/3}$ where $t$ is time, which was inferred from experiments with relatively few vortices in small harmonically trapped condensates.

physics.flu-dyn

Visualization of quantum turbulence in superfluid $^3$He-B: Combined numerical/experimental study of Andreev reflection

We present a combined numerical and experimental study of Andreev scattering from quantum turbulence in superfluid $^3$He-B at ultralow temperatures. We simulate the evolution of moderately dense, three-dimensional, quasiclassical vortex tangles and the Andreev reflection of thermal quasiparticle excitations by these tangles. This numerical simulation enables us to generate the two-dimensional map of local Andreev reflections for excitations incident on one of the faces of a cubic computational domain, and to calculate the total coefficient of Andreev reflection as a function of the vortex line density. Our numerical simulation is then compared with the experimental measurements probing quantum turbulence generated by a vibrating grid. We also address the question of whether the quasiclassical and ultraquantum regimes of quantum turbulence can be distinguished by their respective total Andreev reflectivities. We discuss the screening mechanisms which may strongly affect the total Andreev reflectivity of dense vortex tangles. Finally, we present combined numerical-experimental results for fluctuations of the Andreev reflection from a quasiclassical turbulent tangle and demonstrate that the spectral properties of the Andreev reflection reveal the nature and properties of quantum turbulence.

cond-mat.other

Fighting the flow: the stability of model flocks in a vortical flow

We investigate the stability of self-propelled particle flocks in the Taylor-Green vortex, a steady vortical flow. We consider a model where particles align themselves to a combination of the orientation and the acceleration of particles within a critical radius. We identify two distinct regimes, if alignment with orientation is dominant the particles tend to be expelled from regions of high vorticity. In contrast if anticipation is dominant the particles accumulate in areas of large vorticity. In both regimes the relative order of the flock is reduced. However we show that there can be a critical balance of the two effects which stabilises the flock in the presence of external fluid forcing. This strategy could provide a mechanism for animal flocks to remain globally ordered in the presence of fluid forcing, and may also have applications in the design of flocking autonomous drones and artificial microswimmers.

physics.bio-ph