amsrpm: Robust Point Matching for Retention Time Aligment of LC/MS Data with R

Proteomics is the study of the abundance, function and dynamics of all proteins present in a living organism, and mass spectrometry (MS) has become its most important tool due to its unmatched sensitivity, resolution and potential for high-throughput experimentation. A frequently used variant of mass spectrometry is coupled with liquid chromatography (LC) and is denoted as "LC/MS". It produces two-dimensional raw data, where significant distortions along one of the dimensions can occur between different runs on the same instrument, and between instruments. A compensation of these distortions is required to allow for comparisons between and inference based on different experiments. This article introduces the amsrpm software package. It implements a variant of the Robust Point Matching (RPM) algorithm that is tailored for the alignment of LC and LC/MS experiments. Problem-specific enhancements include a specialized dissimilarity measure, and means to enforce smoothness and monotonicity of the estimated transformation function. The algorithm does not rely on pre-specified landmarks, it is insensitive towards outliers and capable of modeling nonlinear distortions. Its usefulness is demonstrated using both simulated and experimental data. The software is available as an open source package for the statistical programming language R.

The development of a mapping tool for the evaluation of building systems for future climate scenarios on European scale

The paper presents a tool for the mapping of the performance of building systems on European scale for different (future) time periods. The tool is to use for users and be applicable for different building systems. Users should also be able to use a broad range of climate parameters to assess the influence of climate change on these climatic parameters. Also should the calculation time be reasonable short. The mapping tool is developed in MATLAB, which can be used by other users for their own studies.Comment: 21 pages, 24 figures, pre-conferenc

Positive representations of finite groups in Riesz spaces

In this paper, which is part of a study of positive representations of locally compact groups in Banach lattices, we initiate the theory of positive representations of finite groups in Riesz spaces. If such a representation has only the zero subspace and possibly the space itself as invariant principal bands, then the space is Archimedean and finite dimensional. Various notions of irreducibility of a positive representation are introduced and, for a finite group acting positively in a space with sufficiently many projections, these are shown to be equal. We describe the finite dimensional positive Archimedean representations of a finite group and establish that, up to order equivalence, these are order direct sums, with unique multiplicities, of the order indecomposable positive representations naturally associated with transitive $G$-spaces. Character theory is shown to break down for positive representations. Induction and systems of imprimitivity are introduced in an ordered context, where the multiplicity formulation of Frobenius reciprocity turns out not to hold.Comment: 23 pages. To appear in International Journal of Mathematic

Supernova Neutrino Opacity from Nucleon-Nucleon Bremsstrahlung and Related Processes

Elastic scattering on nucleons, \nu N -> N \nu, is the dominant supernova (SN) opacity source for \mu and \tau neutrinos. The dominant energy- and number-changing processes were thought to be \nu e^- -> e^- \nu and \nu\bar \nu e^+ e^- until Suzuki (1993) showed that the bremsstrahlung process \nu\bar \nu NN NN was actually more important. We find that for energy exchange, the related ``inelastic scattering process'' \nu NN NN \nu is even more effective by about a factor of 10. A simple estimate implies that the \nu_\mu and \nu_\tau spectra emitted during the Kelvin-Helmholtz cooling phase are much closer to that of \nu\bar_e than had been thought previously. To facilitate a numerical study of the spectra formation we derive a scattering kernel which governs both bremsstrahlung and inelastic scattering and give an analytic approximation formula. We consider only neutron-neutron interactions, we use a one-pion exchange potential in Born approximation, nonrelativistic neutrons, and the long-wavelength limit, simplifications which appear justified for the surface layers of a SN core. We include the pion mass in the potential and we allow for an arbitrary degree of neutron degeneracy. Our treatment does not include the neutron-proton process and does not include nucleon-nucleon correlations. Our perturbative approach applies only to the SN surface layers, i.e. to densities below about 10^{14} g cm^{-3}.Comment: 36 pages, LaTeX, 6 postscript figs included, matches version accepted for publication in Astrophysical Journa

Otto A. Steen to Mr. Meredith (4 October 1962)

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