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Register a new userNIFTY - Numerical Information Field Theory - a versatile Python library for signal inference
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NIFTY, Numerical Information Field Theory, is a software package designed to enable the development of signal inference algorithms that operate regardless of the underlying spatial grid and its resolution. Its object-oriented framework is written in Python, although it accesses libraries written in Cython, C++, and C for efficiency. NIFTY offers a toolkit that abstracts discretized representations of continuous spaces, fields in these spaces, and operators acting on fields into classes. Thereby, the correct normalization of operations on fields is taken care of automatically without concerning the user. This allows for an abstract formulation and programming of inference algorithms, including those derived within information field theory. Thus, NIFTY permits its user to rapidly prototype algorithms in 1D, and then apply the developed code in higher-dimensional settings of real world problems. The set of spaces on which NIFTY operates comprises point sets, n-dimensional regular grids, spherical spaces, their harmonic counterparts, and product spaces constructed as combinations of those. The functionality and diversity of the package is demonstrated by a Wiener filter code example that successfully runs without modification regardless of the space on which the inference problem is defined.
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MatchingTools is a Python library for doing symbolic calculations in effective field theory. It provides the tools to construct general models by defining their field content and their interaction Lagrangian. Once a model is given, the heavy particles can be integrated out at the tree level to obtain an effective Lagrangian in which only the light particles appear. After integration, some of the terms of the resulting Lagrangian might not be independent. MatchingTools contains functions for transforming these terms to rewrite them in terms of any chosen set of operators.
This paper describes the design and implementation of Stingray, a library in Python built to perform time series analysis and related tasks on astronomical light curves. Its core functionality comprises a range of Fourier analysis techniques commonly used in spectral-timing analysis, as well as extensions for analyzing pulsar data, simulating data sets, and statistical modeling. Its modular build allows for easy extensions and incorporation of its methods into data analysis workflows and pipelines. We aim for the library to be a platform for the implementation of future spectral-timing techniques. Here, we describe the overall vision and framework, core functionality, extensions, and connections to high-level command-line and graphical interfaces. The code is well-tested, with a test coverage of currently 95%, and is accompanied by extensive API documentation and a set of step-by-step tutorials.
We develop information field theory (IFT) as a means of Bayesian inference on spatially distributed signals, the information fields. A didactical approach is attempted. Starting from general considerations on the nature of measurements, signals, noise, and their relation to a physical reality, we derive the information Hamiltonian, the source field, propagator, and interaction terms. Free IFT reproduces the well known Wiener-filter theory. Interacting IFT can be diagrammatically expanded, for which we provide the Feynman rules in position-, Fourier-, and spherical harmonics space, and the Boltzmann-Shannon information measure. The theory should be applicable in many fields. However, here, two cosmological signal recovery problems are discussed in their IFT-formulation. 1) Reconstruction of the cosmic large-scale structure matter distribution from discrete galaxy counts in incomplete galaxy surveys within a simple model of galaxy formation. We show that a Gaussian signal, which should resemble the initial density perturbations of the Universe, observed with a strongly non-linear, incomplete and Poissonian-noise affected response, as the processes of structure and galaxy formation and observations provide, can be reconstructed thanks to the virtue of a response-renormalization flow equation. 2) We design a filter to detect local non-linearities in the cosmic microwave background, which are predicted from some Early-Universe inflationary scenarios, and expected due to measurement imperfections. This filter is the optimal Bayes estimator up to linear order in the non-linearity parameter and can be used even to construct sky maps of non-linearities in the data.
Inferring the potential consequences of an unobserved event is a fundamental scientific question. To this end, Pearls celebrated do-calculus provides a set of inference rules to derive an interventional probability from an observational one. In this framework, the primitive causal relations are encoded as functional dependencies in a Structural Causal Model (SCM), which are generally mapped into a Directed Acyclic Graph (DAG) in the absence of cycles. In this paper, by contrast, we capture causality without reference to graphs or functional dependencies, but with information fields and Witsenhausens intrinsic model. The three rules of do-calculus reduce to a unique sufficient condition for conditional independence, the topological separation, which presents interesting theoretical and practical advantages over the d-separation. With this unique rule, we can deal with systems that cannot be represented with DAGs, for instance systems with cycles and/or spurious edges. We treat an example that cannot be handled-to the extent of our knowledge-with the tools of the current literature. We also explain why, in the presence of cycles, the theory of causal inference might require different tools, depending on whether the random variables are discrete or continuous.
dame-flame is a Python package for performing matching for observational causal inference on datasets containing discrete covariates. This package implements the Dynamic Almost Matching Exactly (DAME) and Fast Large-Scale Almost Matching Exactly (FLAME) algorithms, which match treatment and control units on subsets of the covariates. The resulting matched groups are interpretable, because the matches are made on covariates (rather than, for instance, propensity scores), and high-quality, because machine learning is used to determine which covariates are important to match on. DAME solves an optimization problem that matches units on as many covariates as possible, prioritizing matches on important covariates. FLAME approximates the solution found by DAME via a much faster backward feature selection procedure. The package provides several adjustable parameters to adapt the algorithms to specific applications, and can calculate treatment effects after matching. Descriptions of these parameters, details on estimating treatment effects, and further examples, can be found in the documentation at https://almost-matching-exactly.github.io/DAME-FLAME-Python-Package/
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