We first discuss certain problems with the classical probabilistic approach for assessing forensic evidence, in particular its inability to distinguish between lack of belief and disbelief, and its inability to model complete ignorance within a given population. We then discuss Shafer belief functions, a generalization of probability distributions, which can deal with both these objections. We use a calculus of belief functions which does not use the much criticized Dempster rule of combination, but only the very natural Dempster-Shafer conditioning. We then apply this calculus to some classical forensic problems like the various island problems and the problem of parental identification. If we impose no prior knowledge apart from assuming that the culprit or parent belongs to a given population (something which is possible in our setting), then our answers differ from the classical ones when uniform or other priors are imposed. We can actually retrieve the classical answers by imposing the relevant priors, so our setup can and should be interpreted as a generalization of the classical methodology, allowing more flexibility. We show how our calculus can be used to develop an analogue of Bayes' rule, with belief functions instead of classical probabilities. We also discuss consequences of our theory for legal practice.

So you know the Bayes rule. How does it relate to machine learning? It can be quite difficult to grasp how the puzzle pieces fit together - we know it took us a while. This article is an introduction we wish we had back then. While we have some grasp on the matter, we're not experts, so the following might contain inaccuracies or even outright errors. Feel free to point them out, either in the comments or privately.

Coregulation of the expression of groups of genes has been extensively demonstrated empirically in bacterial and eukaryotic systems. Such coregulation can arise through the use of shared regulatory motifs, which allow the coordinated expression of modules (and module groups) of functionally related genes across the genome. Coregulation can also arise through the physical association of multi-gene complexes through chromosomal looping, which are then transcribed together. We present a general formalism for modeling coregulation rules in the framework of Random Boolean Networks (RBN), and develop specific models for transcription factor networks with modular structure (including module groups, and multi-input modules (MIM) with autoregulation) and multi-gene complexes (including hierarchical differentiation between multi-gene complex members). We develop a mean-field approach to analyse the stability of large networks incorporating coregulation, and show that autoregulated MIM and hierarchical gene-complex models can achieve greater stability than networks without coregulation whose rules have matching activation frequency. We provide further analysis of the stability of small networks of both kinds through simulations. We also characterize several general properties of the transients and attractors in the hierarchical coregulation model, and show using simulations that the steady-state distribution factorizes hierarchically as a Bayesian network in a Markov Jump Process analogue of the RBN model.

Its a constant that you use to normalize, right? And what comes after the normalizing constant in the equation is a vector, right? The authors are using Z' so that you know that the vector always gets normalized, you don't just calculate a constant at the start of training and reuse the same constant each time you calculate as the vector moves off normal.

Covariance Is 0 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

Feature extraction has gained increasing attention in the field of machine learning, as in order to detect patterns, extract information, or predict future observations from big data, the urge of informative features is crucial. The process of extracting features is highly linked to dimensionality reduction as it implies the transformation of the data from a sparse high-dimensional space, to higher level meaningful abstractions. This dissertation employs Neural Networks for distributed paragraph representations, and Latent Dirichlet Allocation to capture higher level features of paragraph vectors. Although Neural Networks for distributed paragraph representations are considered the state of the art for extracting paragraph vectors, we show that a quick topic analysis model such as Latent Dirichlet Allocation can provide meaningful features too. We evaluate the two methods on the CMU Movie Summary Corpus, a collection of 25,203 movie plot summaries extracted from Wikipedia. Finally, for both approaches, we use K-Nearest Neighbors to discover similar movies, and plot the projected representations using T-Distributed Stochastic Neighbor Embedding to depict the context similarities. These similarities, expressed as movie distances, can be used for movies recommendation. The recommended movies of this approach are compared with the recommended movies from IMDB, which use a collaborative filtering recommendation approach, to show that our two models could constitute either an alternative or a supplementary recommendation approach.

Researchers often summarize their work in the form of posters. Posters provide a coherent and efficient way to convey core ideas from scientific papers. Generating a good scientific poster, however, is a complex and time consuming cognitive task, since such posters need to be readable, informative, and visually aesthetic. In this paper, for the first time, we study the challenging problem of learning to generate posters from scientific papers. To this end, a data-driven framework, that utilizes graphical models, is proposed. Specifically, given content to display, the key elements of a good poster, including panel layout and attributes of each panel, are learned and inferred from data. Then, given inferred layout and attributes, composition of graphical elements within each panel is synthesized. To learn and validate our model, we collect and make public a Poster-Paper dataset, which consists of scientific papers and corresponding posters with exhaustively labelled panels and attributes. Qualitative and quantitative results indicate the effectiveness of our approach.

I wrote a series of blog posts on Bayesian modeling with R and Stan. Stan is a growing platform for MC(MC) computing implemented with C . Compared to WinBUGS or OpenBUGS, it is very fast and programmable intuitively. This series of the posts show how to install Stan on R, how to run it, and how to apply it to actual datasets. I hope you'll find it to practice Bayesian modeling easier than ever.

So you know the Bayes rule. How does it relate to machine learning? It can be quite difficult to grasp how the puzzle pieces fit together – we know it took us a while. This article is an introduction we wish we had back then. While we have some grasp on the matter, we're not experts, so the following might contain inaccuracies or even outright errors.

Joint state and parameter estimation is a core problem for dynamic Bayesian networks. Although modern probabilistic inference toolkits make it relatively easy to specify large and practically relevant probabilistic models, the silver bullet---an efficient and general online inference algorithm for such problems---remains elusive, forcing users to write special-purpose code for each application. We propose a novel blackbox algorithm -- a hybrid of particle filtering for state variables and assumed density filtering for parameter variables. It has following advantages: (a) it is efficient due to its online nature, and (b) it is applicable to both discrete and continuous parameter spaces . On a variety of toy and real models, our system is able to generate more accurate results within a fixed computation budget. This preliminary evidence indicates that the proposed approach is likely to be of practical use.