23 papers · ranked by Valyu relevance
Matthew J. K. Vince, Kristin A. Hughes, Anastasiya Buzuk, Deborah L. Perlstein + 2 more
Machine learning (ML) is rapidly gaining traction in many areas of experimental molecular science for elucidating relationships and patterns in large or complex data sets. Historically, ML was largely the preserve of those with specialized training in fields such as statistics or cheminformatics. Increasingly, however…
Samuel Okyere, Joseph Ackora-Prah, Ebenezer Bonyah, Samuel Akwasi Adarkwa
'Samuel Akwasi Adarkwa'] Background: This paper presents a newly developed Matlab code for the numerical simulation of compartmental/deterministic models. It addresses modeling and simulation issues concerning compartmental models. The code is easy to understand and edit for the simulation of compartmental models. An…
Matthew W. Flood, Bernd Grimm, Mashallah Rezakazemi
An increasing number of studies across many research fields from biomedical engineering to finance are employing measures of entropy to quantify the regularity, variability or randomness of time series and image data. Entropy, as it relates to information theory and dynamical systems theory, can be estimated in many…
Ruijie Ren, Xiang-e Sun, Lin Hu
Currently, using MATLAB Web App Server to deploy MATLAB Web applications for hosting and sharing interactive Web applications involves the following problems: slow loading of applications, incompatibility with some browser versions, and various shortcomings of deployment tools, such as poor scalability and difficulty…
Bernard C. Wang, Raymond Gifford, Nathan C. L. Kong, Feng Ruan + 2 more
MatClassRSA is a MATLAB toolbox that performs magnetoen-cephalography and electroencephalography (M/EEG) classification and other analyses related to Representational Similarity Analysis (RSA). The toolbox is designed for cognitive neuroscience researchers who wish to perform classification-based decoding analyses of…
Maik Christopher Stüttgen
The analysis of neurophysiological data obtained from extracellular recordings is usually performed using a number of standard techniques. These include a) the extraction of action potentials from voltage traces and their subsequent classification, i.e., spike sorting, b) the visualization of activity, e.g., by…
George Kazakis, Nikos D. Lagaros, Luciano Lamberti
The main part of the computational cost required for solving the problem of optimal material design with extreme properties using a topology optimization formulation is devoted to solving the equilibrium system of equations derived through the implementation of the finite element method (FEM). To reduce this…
C.V. Hammond, S.T. Williams, M.M. Vega, D. Ao + 7 more
Neuromusculoskeletal injuries including osteoarthritis, stroke, spinal cord injury, and traumatic brain injury affect roughly 19% of the U.S. adult population. Standardized interventions have produced suboptimal functional outcomes due to the unique treatment needs of each patient. Strides have been made to utilize…
Gerardo Chowell, Amanda Bleichrodt, Sushma Dahal, Amna Tariq + 3 more
Reliable short-term forecasts of time series describing an evolving transmission or growth process are key for decision-making in all aspects of life including predicting the weather, commercial product demand, the number of cases of an emerging infectious disease, and the growth or decline of the economy. While simple…
A. Binder, V. Mehrmann, A. Miedlar, P. Schulze
In this report we introduce a Matlab toolbox for the regularization of descriptor systems. We apply it, in particular, for systems resulting from the generalized realization procedure of [16], which generates, via rational interpolation techniques, a linear descriptor system from interpolation data. The resulting…
M.M. Sæther
The angular spectrum (AS) model is customized to calculate the spatial acoustic pressure field generated by a piston source and transmitted through a steel plate immersed in water, for normal beam incidence. A MATLAB program is developed for this specific problem combining use of Gauss quadrature and a generalized…
Bryan Wong, Cameron Chevalier
We present an open-source software package, HADOKEN (High-level Algorithms to Design, Optimize, and Keep Electrons in Nanowires), for predicting electron confinement/localization effects in nanowires with various geometries, arbitrary number of concentric shell layers, doping densities, and external boundary…
Bruno Iannazzo, Mehdi Najafi Kalyani, Federico Poloni
We introduce the mmatrix toolbox, a Matlab software package for componentwise accurate computations with M-matrices described through left or right triplet representations. The core of the toolbox is a Fortran implementation, in the Lapack style, of the unblocked, recursive, and blocked versions of the GTH algorithm…
Subrato Sarkar
In this work, a recently developed fracture modeling method called localizing gradient damage method (LGDM) is implemented in MATLAB. MATLAB is well-known in the computational research community for its simple and easy-to-learn coding interface. As a result, MATLAB is generally preferred for the initial development…
Leonardo Araújo
introspection Authors: ['Leonardo Araújo'] The vector notation adopted by GNU Octave plays a significant role as a tool for introspection, aligning itself with the vision of Kenneth E. Iverson. He believed that, just like mathematics, a programming language should be an effective thinking tool for representing and…
harry gray
The matrix exponential method as implemented in MATLAB is demonstrated as a facile tool for solving the time-dependent concentrations of an arbitrary chemically reactive network modelled as a coupled linear system of first-order differential equations. The method is used to verify a 10 species network incorporating…
Authors not listed
This paper presents the Multi Cell-line Kinetic Model (MCKM), a novel generalised kinetic mechanistic model specifically tailored for Ambr15™ fed-batch cultivations of multiple Chinese Hamster Ovary (CHO) cell lines producing different recombinant monoclonal antibodies (mAbs). Unlike traditional models that requires…
Utku Gulbulak, Austin G. Wellette-Hunsucker, Kenneth S. Campbell
GelBox is open-source software that was developed with the goal of enhancing rigor, reproducibility, and transparency when analyzing gels and immunoblots. It combines image adjustments (cropping, rotation, brightness, and contrast), background correction, and band-fitting in a single application. Users can also…
MARCO TODISCO
Determining the distribution of multiple chemical species at equilibrium for a given system is a common problem that must be routinely addressed by scholars. While simple systems consisting of a few species and reactions can be solved manually, most of these problems require the definition and solution of higher-order…
Harry Gray
Developed in this article is the electron transfer network, a graph structure whose adjacent nodes are reversibly coupled chemically reactive species whose forward and reverse rate constants are calculated by semiclassical electron transfer theory. These ET networks resemble electric circuits containing branches…
Xavier Vasseur, Philippe L. Toint
A new decoder for the SIF test problems of the CUTEst collection is described, which produces problem files allowing the computation of values and derivatives of the objective function and constraints of most CUTEst problems directly within "native" Matlab, Python or Julia, without any additional installation or…
Anzhi Zhang, Massimiliano Fasi
TypedMatrices.jl is a Julia package to organize test matrices. By default, the package comes with a number of built-in matrices and interfaces to help users select test cases based on their properties. The package is designed to be extensible, allowing users to define their own matrix types. We discuss the design and…
Authors not listed
As a prove of concept for experimental geochemistry, an advanced 3D numerical framework, here and after called Digital Twin (DT), of a diffusion experiment conducted at a synchrotron beamline, has been implemented using in-situ measurements data, physics-based modelling, a machine learning (ML) model, and parameter…