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In this paper, we develop a code length principle which is invariant to the choice of parameterization on the model distributions, that is the code length remains the same under smooth transformations on the likelihood parameters. An invariant approximation formula for easy computation of the marginal distribution is provided for Gaussian likelihood models.(More)
Multiple sequence alignments can provide information for comparative analyses of proteins and protein populations. We present some statistical trend-tests that can be used when an aligned data set can be divided into two or more populations based on phenotypic traits such as preference of temperature, pH, salt concentration or pressure. The approach is(More)
BACKGROUND Statistical bioinformatics is the study of biological data sets obtained by new micro-technologies by means of proper statistical methods. For a better understanding of environmental adaptations of proteins, orthologous sequences from different habitats may be explored and compared. The main goal of the DeltaProt Toolbox is to provide users with(More)
The minimum frustration principle (MFP) is a computational approach stating that, over the long time scales of evolution, proteins' free energy decreases more than expected by thermodynamical constraints as their amino acids assume conformations progressively closer to the lowest energetic state. This Review shows that this general principle, borrowed from(More)
The use of sequence alignments for establishing protein homology relationships has an extensive tradition in the field of bioinformatics, and there is an increasing desire for more statistical methods in the data analysis. We present statistical methods and algorithms that are useful when the protein alignments can be divided into two populations based on(More)
We parameterize the phase space density by time dependent dif-feomorphic, Poisson preserving transformations on phase space acting on a reference density solution. We can look at these as transformations which fix time on the extended space of phase space and time. In this formulation the Vlasov equation is replaced by a constraint equation for the above(More)
Multiwavelets are emerging as an attractive alternative to traditional basis sets such as Gaussian-type orbitals and plane waves. One of their distinctive properties is the ability to reach the basis set limit (often a chimera for traditional approaches) reliably and consistently by fixing the desired precision ε. We present our multiwavelet implementation(More)