Linear solvers for large and sparse systems are a key element of scientific applications, and their efficient implementation is necessary to harness the computational power of current computers. Algebraic Multigrid (AMG) Preconditioners are a popular ingredient of such linear solvers; this is the motivation for the present work where we examine some recent developments in a package of AMG preconditioners to improve efficiency, scalability, and robustness on extreme-scale problems.

The main focus of this paper is the characterization and exploitation of the asymptotic spectrum of the saddle--point matrix sequences arising from the discretization of optimization problems constrained by elliptic partial differential equations. They uncover the existence of an hidden structure in these matrix sequences, namely, they show that these are indeed an example of Generalized Locally Toeplitz (GLT) sequences.

The T-box transcription factor TBX1 has critical roles in the cardiopharyngeal lineage and the gene is haploinsufficient in DiGeorge syndrome, a typical developmental anomaly of the pharyngeal apparatus. Despite almost two decades of research, if and how TBX1 function triggers chromatin remodeling is not known. Here, we explored genome-wide gene expression and chromatin remodeling in two independent cellular models of Tbx1 loss of function, mouse embryonic carcinoma cells P19Cl6, and mouse embryonic stem cells (mESCs).

In this paper, we discuss the convergence of an Algebraic MultiGrid (AMG) method for general symmetric positive-definite matrices. The method relies on an aggregation algorithm, named coarsening based on compatible weighted matching, which exploits the interplay between the principle of compatible relaxation and the maximum product matching in undirected weighted graphs.

Active fluids comprise a variety of systems composed of elements immersed in a fluid environment which can convert some form of energy into directed motion; as such they are intrinsically out-of-equilibrium in the absence of any external force. A fundamental problem in the physics of active matter concerns the understanding of how the characteristics of autonomous propulsion and agent-agent interactions determine the collective dynamics of the system.

Recent years have witnessed a massive push towards reproducible research in neuroscience. Unfortunately, this endeavor is often challenged by the large diversity of tools used, project-specific custom code and the difficulty to track all user-defined parameters. NeuroPycon is an open-source multi-modal brain data analysis toolkit which provides Python-based template pipelines for advanced multi-processing of MEG, EEG, functional and anatomical MRI data, with a focus on connectivity and graph theoretical analyses.

The dynamics of active colloids is very sensitive to the presence of boundaries and interfaces which therefore can be used to control their motion. Here we analyze the dynamics of active colloids adsorbed at a fluid-fluid interface. By using a mesoscopic numerical approach which relies on an approximated numerical solution of the Navier-Stokes equation, we show that when adsorbed at a fluid interface, an active colloid experiences a net torque even in the absence of a viscosity contrast between the two adjacent fluids.

This paper deals with the solution of an inverse problem for the heat equation aimed at nondestructive evaluation of fractures, emerging on the accessible surface of a slab, by means of Active Thermography. In real life, this surface is heated with a laser and its temperature is measured for a time interval by means of an infrared camera. A fundamental step in iterative inversion methods is the numerical solution of the underlying direct mathematical model.

We investigate the rheology of strain-hardening spherical capsules, from the dilute to the concentrated regime under a confined shear flow using three-dimensional numerical simulations. We consider the effect of capillary number, volume fraction and membrane inextensibility on the particle deformation and on the effective suspension viscosity and normal stress differences of the suspension. The suspension displays a shear-thinning behaviour that is a characteristic of soft particles such as emulsion droplets, vesicles, strain-softening capsules and red blood cells.

Internal waves describe the (linear) response of an incompressible sta- bly stratified fluid to small perturbations. The inclination of their group velocity with respect to the vertical is completely determined by their frequency. Therefore the reflection on a sloping boundary cannot follow Descartes' laws, and it is expected to be singular if the slope has the same inclination as the group velocity.