2010, Streckenbach, Timo

WPM is a command-line tool designed to support build and installation facilities. It is implemented as a collection of script files, written in Bourne shell syntax. For the sake of portability the code takes care of the common pitfalls of shell programming.

2017, Angulo-Garcia, David, Luccioli, Stefano, Olmi, Simona, Torcini, Alessandro

Inhibition is a key aspect of neural dynamics playing a fundamental role for the emergence of neural rhythms and the implementation of various information coding strategies. Inhibitory populations are present in several brain structures, and the comprehension of their dynamics is strategical for the understanding of neural processing. In this paper, we clarify the mechanisms underlying a general phenomenon present in pulse-coupled heterogeneous inhibitory networks: inhibition can induce not only suppression of neural activity, as expected, but can also promote neural re-activation. In particular, for globally coupled systems, the number of firing neurons monotonically reduces upon increasing the strength of inhibition (neuronal death). However, the random pruning of connections is able to reverse the action of inhibition, i.e. in a random sparse network a sufficiently strong synaptic strength can surprisingly promote, rather than depress, the activity of neurons (neuronal rebirth). Thus, the number of firing neurons reaches a minimum value at some intermediate synaptic strength. We show that this minimum signals a transition from a regime dominated by neurons with a higher firing activity to a phase where all neurons are effectively sub-threshold and their irregular firing is driven by current fluctuations. We explain the origin of the transition by deriving a mean field formulation of the problem able to provide the fraction of active neurons as well as the first two moments of their firing statistics. The introduction of a synaptic time scale does not modify the main aspects of the reported phenomenon. However, for sufficiently slow synapses the transition becomes dramatic, and the system passes from a perfectly regular evolution to irregular bursting dynamics. In this latter regime the model provides predictions consistent with experimental findings for a specific class of neurons, namely the medium spiny neurons in the striatum.

2017, Behrndt, Jussi, Malamud, Mark M., Neidhardt, Hagen

A general representation formula for the scattering matrix of a scattering system consisting of two self-adjoint operators in terms of an abstract operator valued Titchmarsh–Weyl m-function is proved. This result is applied to scattering problems for different self-adjoint realizations of Schrödinger operators on unbounded domains, Schrödinger operators with singular potentials supported on hypersurfaces, and orthogonal couplings of Schrödinger operators. In these applications the scattering matrix is expressed in an explicit form with the help of Dirichlet-to-Neumann maps.

2014, Real, R.G., Dickhaus, T., Ludolph, A., Hautzinger, M., Kübler, A.

Objective: The aim of this longitudinal study was to identify predictors of instantaneous well-being in patients with amyotrophic lateral sclerosis (ALS). Based on flow theory well-being was expected to be highest when perceived demands and perceived control were in balance, and that thinking about the past would be a risk factor for rumination which would in turn reduce well-being. Methods: Using the experience sampling method, data on current activities, associated aspects of perceived demands, control, and well-being were collected from 10 patients with ALS three times a day for two weeks. Results: Results show that perceived control was uniformly and positively associated with well-being, but that demands were only positively associated with well-being when they were perceived as controllable. Mediation analysis confirmed thinking about the past, but not thinking about the future, to be a risk factor for rumination and reduced well-being. Discussion: Findings extend our knowledge of factors contributing to well-being in ALS as not only perceived control but also perceived demands can contribute to well-being. They further show that a focus on present experiences might contribute to increased well-being.

2013, Si, Hang

TetGen is a software for tetrahedral mesh generation. Its goal is to generate good quality tetrahedral meshes suitable for numerical methods and scientific computing. It can be used as either a standalone program or a library component integrated in other software. The purpose of this document is to give a brief explanation of the kind of tetrahedralizations and meshing problems handled by TetGen and to give a fairly detailed documentation about the usage of the program. Readers will learn how to create tetrahedral meshes using input files from the command line. Furthermore, the programming interface for calling TetGen from other programs is explained.

2011, Tabelow, K., Polzehl, J.

The purpose of the package fmri is the analysis of single subject functional magnetic resonance imaging (fMRI) data. It provides fMRI analysis from time series modeling by a linear model to signal detection and publication quality images. Specifically, it implements structural adaptive smoothing methods with signal detection for adaptive noise reduction which avoids blurring of activation areas. Within this paper we describe the complete pipeline for fMRI analysis using fmri. We describe data reading from various medical imaging formats and the linear modeling used to create the statistical parametric maps. We review the rationale behind the structural adaptive smoothing algorithms and explain their usage from the package fmri. We demonstrate the results of such analysis using two experimental datasets. Finally, we report on the usage of a graphical user interface for some of the package functions.

2018, Adam, L., Hintermüller, M., Surowiec, T.M.

An efficient, function-space-based second-order method for the H1-projection onto the Gibbs simplex is presented. The method makes use of the theory of semismooth Newton methods in function spaces as well as Moreau–Yosida regularization and techniques from parametric optimization. A path-following technique is considered for the regularization parameter updates. A rigorous first- and second-order sensitivity analysis of the value function for the regularized problem is provided to justify the update scheme. The viability of the algorithm is then demonstrated for two applications found in the literature: binary image inpainting and labeled data classification. In both cases, the algorithm exhibits mesh-independent behavior.

2017, Si, Hang, Ren, Yuxue, Lei, Na, Gu, Xianfeng

This paper considers a set of twisted line segments in 3d such that they form a knot (a closed curve) or a link of two closed curves. Such line segments appear on the boundary of a family of 3d indecomposable polyhedra (like the Schönhardt polyhedron) whose interior cannot be tetrahedralised without additional vertices added. On the other hand, a 3d (non-convex) polyhedron whose boundary contains such line segments may still be decomposable as long as the twist is not too large. It is therefore interesting to consider the question: when there exists a tetrahedralisation contains a given set of knotted or linked line segments? In this paper, we studied a simplified question with the assumption that all vertices of the line segments are in convex position. It is straightforward to show that no tetrahedralisation of 6 vertices (the three-line-segments case) can contain a trefoil knot. Things become interesting when the number of line segments increases. Since it is necessary to create new interior edges to form a tetrahedralisation. We provided a detailed analysis for the case of a set of 4 line segments. This leads to a crucial condition on the orientation of pairs of new interior edges which determines whether this set is decomposable or not. We then prove a new theorem about the decomposability for a set of n (n ≥ 3) knotted or linked line segments. This theorem implies that the family of polyhedra generalised from the Schonhardt polyhedron by Rambau [1] are all indecomposable.

2019, Slepneva, Svetlana, O'Shaughnessy, Ben, Vladimirov, Andrei G., Rica, Sergio, Viktorov, Evgeny A., Huyet, Guillaume

We show, both experimentally and theoretically, that the loss of coherence of a long cavity optical coherence tomography (OCT) laser can be described as a transition from laminar to turbulent flows. We demonstrate that in this strongly dissipative system, the transition happens either via an absolute or a convective instability depending on the laser parameters. In the latter case, the transition occurs via formation of localised structures in the laminar regime, which trigger the formation of growing and drifting puffs of turbulence. Experimentally, we demonstrate that these turbulent bursts are seeded by appearance of Nozaki-Bekki holes, characterised by the zero field amplitude and π phase jumps. Our experimental results are supported with numerical simulations based on the delay differential equations model.

2017, Liero, Matthias, Mielke, Alexander, Savaré, Giuseppe

We develop a full theory for the new class of Optimal Entropy-Transport problems between nonnegative and finite Radon measures in general topological spaces. These problems arise quite naturally by relaxing the marginal constraints typical of Optimal Transport problems: given a pair of finite measures (with possibly different total mass), one looks for minimizers of the sum of a linear transport functional and two convex entropy functionals, which quantify in some way the deviation of the marginals of the transport plan from the assigned measures. As a powerful application of this theory, we study the particular case of Logarithmic Entropy-Transport problems and introduce the new Hellinger–Kantorovich distance between measures in metric spaces. The striking connection between these two seemingly far topics allows for a deep analysis of the geometric properties of the new geodesic distance, which lies somehow between the well-known Hellinger–Kakutani and Kantorovich–Wasserstein distances.