@article {orozco2023invnet,
	title = {InvertibleNetworks.jl: A Julia package for scalable normalizing flows},
	journal = {Journal of Open Source Software},
	volume = {9},
	year = {2024},
	month = {7},
	abstract = {InvertibleNetworks.jl is a Julia package designed for the scalable implementation of normalizing flows, a method for density estimation and sampling in high-dimensional distributions. This package excels in memory efficiency by leveraging the inherent invertibility of normalizing flows, which significantly reduces memory requirements during backpropagation compared to existing normalizing flow packages that rely on automatic differentiation frameworks. InvertibleNetworks.jl has been adapted for diverse applications, including seismic imaging, medical imaging, and CO2 monitoring, demonstrating its effectiveness in learning high-dimensional distributions.},
	keywords = {Bayesian inference, computing, conditional normalizing flows, deep learning, HPC, Inverse problems, memory, Normalizing flows, software, Uncertainty quantification},
	doi = {10.21105/joss.06554},
	url = {https://doi.org/10.21105/joss.06554},
	author = {Rafael Orozco and Philipp A. Witte and Mathias Louboutin and Ali Siahkoohi and Gabrio Rizzuti and Bas Peters and Felix J. Herrmann}
}
@article {louboutin2023lmi,
	title = {Learned multiphysics inversion with differentiable programming and machine learning},
	journal = {The Leading Edge},
	volume = {42},
	year = {2023},
	note = {(The Leading Edge)},
	month = {07},
	pages = {452-516},
	abstract = {We present the Seismic Laboratory for Imaging and Modeling/Monitoring (SLIM) open-source software framework for computational geophysics and, more generally, inverse problems involving the wave-equation (e.g., seismic and medical ultrasound), regularization with learned priors, and learned neural surrogates for multiphase flow simulations. By integrating multiple layers of abstraction, our software is designed to be both readable and scalable. This allows researchers to easily formulate their problems in an abstract fashion while exploiting the latest developments in high-performance computing. We illustrate and demonstrate our design principles and their benefits by means of building a scalable prototype for permeability inversion from time-lapse crosswell seismic data, which aside from coupling of wave physics and multiphase flow, involves machine learning.},
	keywords = {CCS, deep learning, Fourier neural operators, GCS, Imaging, inversion, invertible networks, machine learning, monitoring, multiphysics, Normalizing flows, SLIM, software, time-lapse},
	url = {https://library.seg.org/doi/10.1190/tle42070474.1},
	presentation = {https://slim.gatech.edu/Publications/Public/Journals/TheLeadingEdge/2023/louboutin2023lmi/le_software.pdf},
	url2 = {https://slim.gatech.edu/Publications/Public/Journals/TheLeadingEdge/2023/louboutin2023lmi/le_software.html},
	author = {Mathias Louboutin and Ziyi Yin and Rafael Orozco and Thomas J. Grady II and Ali Siahkoohi and Gabrio Rizzuti and Philipp A. Witte and Olav M{\o}yner and Gerard J. Gorman and Felix J. Herrmann}
}
@article {siahkoohi2022ravi,
	title = {Reliable amortized variational inference with physics-based latent distribution correction},
	journal = {Geophysics},
	volume = {88},
	number = {3},
	year = {2023},
	note = {(Geophysics)},
	month = {05},
	abstract = {Bayesian inference for high-dimensional inverse problems is challenged by the computational costs of the forward operator and the selection of an appropriate prior distribution. Amortized variational inference addresses these challenges where a neural network is trained to approximate the posterior distribution over existing pairs of model and data. When fed previously unseen data and normally distributed latent samples as input, the pretrained deep neural network{\textendash}-in our case a conditional normalizing flow{\textendash}-provides posterior samples with virtually no cost. However, the accuracy of this approach relies on the availability of high-fidelity training data, which seldom exists in geophysical inverse problems because of the highly heterogeneous structure of the Earth. In addition, accurate amortized variational inference requires the observed data to be drawn from the training data distribution. As such, we offer a solution that increases the resilience of amortized variational inference when faced with data distribution shifts, e.g., changes in the forward model or prior distribution. Our method involves a physics-based correction to the conditional normalizing flow latent distribution to provide a more accurate approximation to the posterior distribution for the observed data at hand. To accomplish this, instead of a standard Gaussian latent distribution, we parameterize the latent distribution by a Gaussian distribution with an unknown mean and diagonal covariance. These unknown quantities are then estimated by minimizing the Kullback-Leibler divergence between the corrected and true posterior distributions. While generic and applicable to other inverse problems, by means of a seismic imaging example, we show that our correction step improves the robustness of amortized variational inference with respect to changes in number of source experiments, noise variance, and shifts in the prior distribution. This approach provides a seismic image with limited artifacts and an assessment of its uncertainty with approximately the same cost as five reverse-time migrations.},
	keywords = {Inverse problems, Normalizing flows, seismic imaging, Uncertainty quantification, Variational Inference},
	doi = {10.1190/geo2022-0472.1},
	url = {https://slim.gatech.edu/Publications/Public/Journals/Geophysics/2023/siahkoohi2022ravi/paper.html},
	software = {https://github.com/slimgroup/ReliableAVI.jl},
	author = {Ali Siahkoohi and Gabrio Rizzuti and Rafael Orozco and Felix J. Herrmann}
}
@article {siahkoohi2021dbif,
	title = {Deep Bayesian inference for seismic imaging with tasks},
	journal = {Geophysics},
	volume = {87},
	number = {5},
	year = {2022},
	note = {(Geophysics)},
	month = {07},
	pages = {281-302},
	abstract = {We propose to use techniques from Bayesian inference and deep neural networks to translate uncertainty in seismic imaging to uncertainty in tasks performed on the image, such as horizon tracking. Seismic imaging is an ill-posed inverse problem because of unavoidable bandwidth and aperture limitations, which that is hampered by the presence of noise and linearization errors. Many regularization methods, such as transform-domain sparsity promotion, have been designed to deal with the adverse effects of these errors, however, these methods run the risk of biasing the solution and do not provide information on uncertainty in the image space and how this uncertainty impacts certain tasks on the image. A systematic approach is proposed to translate uncertainty due to noise in the data to confidence intervals of automatically tracked horizons in the image. The uncertainty is characterized by a convolutional neural network (CNN) and to assess these uncertainties, samples are drawn from the posterior distribution of the CNN weights, used to parameterize the image. Compared to traditional priors, in the literature it is argued that these CNNs introduce a flexible inductive bias that is a surprisingly good fit for many diverse domains in imaging. The method of stochastic gradient Langevin dynamics is employed to sample from the posterior distribution. This method is designed to handle large scale Bayesian inference problems with computationally expensive forward operators as in seismic imaging. Aside from offering a robust alternative to maximum a posteriori estimate that is prone to overfitting, access to these samples allow us to translate uncertainty in the image, due to noise in the data, to uncertainty on the tracked horizons. For instance, it admits estimates for the pointwise standard deviation on the image and for confidence intervals on its automatically tracked horizons.},
	keywords = {deep priors, horizon tracking, seismic imaging, Uncertainty quantification},
	doi = {10.1190/geo2021-0666.1},
	url = {https://slim.gatech.edu/Publications/Public/Journals/Geophysics/2022/siahkoohi2021dbif/paper.html},
	author = {Ali Siahkoohi and Gabrio Rizzuti and Felix J. Herrmann}
}
@article {rizzuti2020dfw,
	title = {A dual formulation of wavefield reconstruction inversion for large-scale seismic inversion},
	journal = {Geophysics},
	volume = {86},
	number = {6},
	year = {2021},
	note = {(Geophysics)},
	month = {10},
	pages = {1ND-Z3},
	abstract = {Many of the seismic inversion techniques currently proposed that focus on robustness with respect to the background model choice are not apt to large-scale 3D applications, and the methods that are computationally feasible for industrial problems, such as full waveform inversion, are notoriously limited by convergence stagnation and require adequate starting models. We propose a novel solution that is both scalable and less sensitive to starting models or inaccurate parameters (such as anisotropy) that are typically kept fixed during inversion. It is based on a dual reformulation of the classical wavefield reconstruction inversion, whose empirical robustness with respect to these issues is well documented in the literature. While the classical version is not suited to 3D, as it leverages expensive frequency-domain solvers for the wave equation, our proposal allows the deployment of state-of-the-art time-domain finite-difference methods, and is potentially mature for industrial-scale problems.},
	keywords = {3D, finite-difference, Full-waveform inversion, wave equation},
	doi = {10.1190/geo2020-0743.1},
	url = {https://slim.gatech.edu/Publications/Public/Journals/Geophysics/2021/rizzuti2020dfw/rizzuti2020dfw.html},
	author = {Gabrio Rizzuti and Mathias Louboutin and Rongrong Wang and Felix J. Herrmann}
}
@article {yarman2017GPmbd,
	title = {A model based data driven dictionary learning for seismic data representation},
	journal = {Geophysical Prospecting},
	year = {2017},
	note = {(published online in Geophysical Prospecting)},
	month = {04},
	abstract = {Planar waves events recorded in a seismic array can be represented as lines in the Fourier domain. However, in the real-world seismic events usually have curvature or amplitude variability that means their Fourier transforms are no longer strictly linear, but rather occupy conic regions of the Fourier domain that are narrow at low frequencies, but broaden at high frequencies where the effect of curvature becomes more pronounced. One can consider these regions as localised "signal cones". In this work, we consider a space-time variable signal cone to model the seismic data. The variability of the signal cone is obtained through scaling, slanting and translation of the kernel for cone-limited (C-limited) functions (functions whose Fourier transform lives within a cone) or C-Gaussian function (a multivariate function whose Fourier transform decays exponentially with respect to slowness and frequency) which constitutes our dictionary. We find a discrete number of scaling, slanting and translation parameters from a continuum by optimally matching the data. This is a nonlinear optimization problem which we address by a fixed point method which utilizes a variable projection method with e1 constraints on the linear parameters and bound constraints on the nonlinear parameters. We observe that slow decay and oscillatory behavior of the kernel for C-limited functions constitute bottlenecks for the optimization problem which we partially overcome by the C-Gaussian function. We demonstrate our method through an interpolation example. We present the interpolation result using the estimated parameters obtained from the proposed method and compare it with those obtained using sparsity promoting curvelet decomposition, matching pursuit Fourier interpolation and sparsity promoting plane wave decomposition methods.},
	keywords = {dictionary learning, kernel method, nonlinear optimization, reproducing kernel, variable projection, variational method},
	doi = {10.1111/1365-2478.12533},
	url = {https://slim.gatech.edu/Publications/Public/Journals/GeophysicalProspecting/2017/yarman2017GPmbd/yarman2017GPmbd.pdf},
	author = {Can Evren Yarman and Rajiv Kumar and James Rickett}
}
@article {kumar2014GEOPemc,
	title = {Efficient matrix completion for seismic data reconstruction},
	journal = {Geophysics},
	volume = {80},
	number = {5},
	year = {2015},
	note = {(Geophysics)},
	month = {09},
	pages = {V97-V114},
	abstract = {Despite recent developments in improved acquisition, seismic data often remain undersampled along source and receiver coordinates, resulting in incomplete data for key applications such as migration and multiple prediction. We have interpreted the missing-trace interpolation problem in the context of matrix completion (MC), and developed three practical principles for using low-rank optimization techniques to recover seismic data. Specifically, we strive for recovery scenarios wherein the original signal is low rank and the subsampling scheme increases the singular values of the matrix. We use an optimization program that restores this low-rank structure to recover the full volume. Omitting one or more of these principles can lead to poor interpolation results, as we found experimentally. In light of this theory, we compensate for the high-rank behavior of data in the source-receiver domain by using the midpoint-offset transformation for 2D data and a source-receiver permutation for 3D data to reduce the overall singular values. Simultaneously, to work with computationally feasible algorithms for large-scale data, we use a factorization-based approach to MC, which significantly speeds up the computations compared with repeated singular value decompositions without reducing the recovery quality. In the context of our theory and experiments, we also find that windowing the data too aggressively can have adverse effects on the recovery quality. To overcome this problem, we carried out our interpolations for each frequency independently while working with the entire frequency slice. The result is a computationally efficient, theoretically motivated framework for interpolating missing-trace data. Our tests on realistic 2D and 3D seismic data sets show that our method compares favorably in terms of computational speed and recovery quality with existing curvelet- and tensor-based techniques.},
	keywords = {2D, 3D, algorithm, interpolation, low-rank, signal processing},
	doi = {10.1190/geo2014-0369.1},
	url = {https://slim.gatech.edu/Publications/Public/Journals/Geophysics/2015/kumar2014GEOPemc/kumar2014GEOPemc.pdf},
	url2 = {http://library.seg.org/doi/abs/10.1190/geo2014-0369.1},
	author = {Rajiv Kumar and Curt Da Silva and Okan Akalin and Aleksandr Y. Aravkin and Hassan Mansour and Ben Recht and Felix J. Herrmann}
}
@article {aravkin2014SISCfmd,
	title = {Fast methods for denoising matrix completion formulations, with applications to robust seismic data interpolation},
	journal = {SIAM Journal on Scientific Computing},
	volume = {36},
	number = {5},
	year = {2014},
	note = {(SISC)},
	month = {10},
	pages = {S237-S266},
	abstract = {Recent SVD-free matrix factorization formulations have enabled rank minimization for systems with millions of rows and columns, paving the way for matrix completion in extremely large-scale applications, such as seismic data interpolation. In this paper, we consider matrix completion formulations designed to hit a target data-fitting error level provided by the user, and we propose an algorithm called LR-BPDN that is able to exploit factorized formulations to solve the corresponding optimization problem. Since practitioners typically have strong prior knowledge about target error level, this innovation makes it easy to apply the algorithm in practice, leaving only the factor rank to be determined. Within the established framework, we propose two extensions that are highly relevant to solving practical challenges of data interpolation. First, we propose a weighted extension that allows known subspace information to improve the results of matrix completion formulations. We show how this weighting can be used in the context of frequency continuation, an essential aspect to seismic data interpolation. Second, we propose matrix completion formulations that are robust to large measurement errors in the available data. We illustrate the advantages of LR-BPDN on collaborative filtering problems using the MovieLens 1M and 10M and Netflix 100M datasets. Then we use the new method, along with its robust and subspace reweighted extensions, to obtain high-quality reconstructions for large-scale seismic interpolation problems with real data, even in the presence of data contamination.},
	keywords = {factorized formulations, matrix completion, robust statistics, seismic trace interpolation, variational optimization},
	doi = {10.1137/130919210},
	url = {https://slim.gatech.edu/Publications/Public/Journals/SIAMJournalOnScientificComputing/2014/aravkin2014SISCfmd/aravkin2014SISCfmd.pdf},
	url2 = {http://epubs.siam.org/doi/abs/10.1137/130919210},
	author = {Aleksandr Y. Aravkin and Rajiv Kumar and Hassan Mansour and Ben Recht and Felix J. Herrmann}
}
