Spinor BECs in a double-well: population transfer and Josephson oscillations

The dynamics of an F=1 spinor condensate in a two-well potential is studied within the framework of the Gross-Pitaevskii equation. We derive two-mode equations relating the population imbalances, the phase differences among the condensates at each side of the barrier and the time evolution of the different Zeeman populations for the case of small population imbalances. The case of zero total magnetization is scrutinized in this limit demonstrating the ability of a two mode analysis to describe to a large extent the dynamics observed in the Gross-Pitaevskii equations. It is also demonstrated that the time evolution of the different total populations fully decouples from the Josephson tunneling phenomena. All the relevant time scales are clearly identified with microscopic properties of the atom-atom interactions

Fragmented condensation in Bose-Hubbard trimers with tunable tunnelling

We consider a Bose-Hubbard trimer, i.e. an ultracold Bose gas populating three quantum states. The latter can be either different sites of a triple-well potential or three internal states of the atoms. The bosons can tunnel between different states with variable tunnelling strength between two of them. This will allow us to study; i) different geometrical configurations, i.e. from a closed triangle to three aligned wells and ii) a triangular configuration with a $\pi$-phase, i.e. by setting one of the tunnellings negative. By solving the corresponding three-site Bose-Hubbard Hamiltonian we obtain the ground state of the system as a function of the trap topology. We characterise the different ground states by means of the coherence and entanglement properties. For small repulsive interactions, fragmented condensates are found for the $\pi$-phase case. These are found to be robust against small variations of the tunnelling in the small interaction regime. A low-energy effective many-body Hamiltonian restricted to the degenerate manifold provides a compelling description of the $\pi$-phase degeneration and explains the low-energy spectrum as excitations of discrete semifluxon states

Dynamic generation of spin-squeezed states in bosonic Josephson junctions

We analyze the formation of squeezed states in a condensate of ultracold bosonic atoms confined by a double-well potential. The emphasis is set on the dynamical formation of such states from initially coherent many-body quantum states. Two cases are described: the squeezing formation in the evolution of the system around the stable point, and in the short time evolution in the vicinity of an unstable point. The latter is shown to produce highly squeezed states on very short times. On the basis of a semiclassical approximation to the Bose-Hubbard Hamiltonian, we are able to predict the amount of squeezing, its scaling with $N$ and the speed of coherent spin formation with simple analytical formulas which successfully describe the numerical Bose-Hubbard results. This new method of producing highly squeezed spin states in systems of ultracold atoms is compared to other standard methods in the literature.Comment: 12 pages, revised discussion + added reference

Sincell: an R/Bioconductor package for statistical assessment of cell-state hierarchies from single-cell RNA-seq

Cell differentiation processes are achieved through a continuum of hierarchical intermediate cell states that might be captured by single-cell RNA seq. Existing computational approaches for the assessment of cell-state hierarchies from single-cell data can be formalized under a general framework composed of (i) a metric to assess cell-to-cell similarities (with or without a dimensionality reduction step) and (ii) a graph-building algorithm (optionally making use of a cell clustering step). The Sincell R package implements a methodological toolbox allowing flexible workflows under such a framework. Furthermore, Sincell contributes new algorithms to provide cell-state hierarchies with statistical support while accounting for stochastic factors in single-cell RNA seq. Graphical representations and functional association tests are provided to interpret hierarchies. The functionalities of Sincell are illustrated in a real case study, which demonstrates its ability to discriminate noisy from stable cell-state hierarchies. AVAILABILITY AND IMPLEMENTATION: Sincell is an open-source R/Bioconductor package available at http://bioconductor.org/packages/sincell. A detailed manual and a vignette are provided with the package. CONTACT: [email protected] SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online

Double and single pion photoproduction within a dynamical coupled-channels model

Within a dynamical coupled-channels model which has already been fixed from analyzing the data of the pi N -> pi N and gamma N -> pi N reactions, we present the predicted double pion photoproduction cross sections up to the second resonance region, W< 1.7 GeV. The roles played by the different mechanisms within our model in determining both the single and double pion photoproduction reactions are analyzed, focusing on the effects due to the direct gamma N -> pi pi N mechanism, the interplay between the resonant and non-resonant amplitudes, and the coupled-channels effects. The model parameters which can be determined most effectively in the combined studies of both the single and double pion photoproduction data are identified for future studies.Comment: Version to appear in PRC. 16 pages, 13 figure