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8 results for “Numerical solutions”
Dataset for "The Ithildin library for efficient numerical solution of anisotropic reaction-diffusion problems in excitable media"
<p>This archive contains the full source code of Ithildin as well as the data generated by the simulations used in the paper introducing the Ithildin software.</p>
Complete numerical solutions for "Inference of ecological and social drivers of human brain-size evolution" by Mauricio González-Forero and Andy Gardner
<p>This zip file contains the complete numerical solutions across the parameter sweep over the P parameters for the six cases considered.</p> <p>/1RatioForm/ -> solutions for power competence.<br> /2DiffForm/ -> solutions for exponential competence.</p> <p>/1RatioForm/1BenchmarkFromSimpleInitialGuess -> solution for the step 1 of initialization (section 5 of the SI).<br> /1RatioForm/2Benchmark/ -> solution for the step 2 of the initialization (section 5 of the SI).<br> /1RatioForm/3AdditiveCoop/ -> solutions across the P parameter combinations for additive cooperation.<br> /1RatioForm/4MultCoop/ -> solutions across the P parameter combinations for multiplicative cooperation.<br> /1RatioForm/5SubMultCoop/ -> solutions across the P parameter combinations for submultiplicative cooperation.</p> <p>The contents of /2DiffForm/ are analogous.</p> <p>The P vector is written in these files in the order (etas,etac,etaC,etag), where<br> etas -> P1<br> etac -> P3<br> etaC -> P2<br> etag -> P4</p> <p>The files 1runNotesACMC.pdf and 2runNotesSC.pdf contain the tree structure of the parameter sweep, specifying which parameter combination was used as the resident and which combinations converged to an uninvadable strategy (those with a checkmark).</p> <p>The file 3runNotesMaternalCareOptimization.pdf contains the 10 parameter combinations that yielded the best adult fit, which then were subject to variation in the parameter phi to find the combination that yielded the best ontogenetic fit.</p> <p>The file 4runNotesDuplicates.pdf gives the parameter combinations that were not run because they are equivalent to other parameter combinations.</p> <p>Running [T,N1,run,Tshort,N1short,runShort]=etaCombinations in Matlab and typing run.seed{i}.parallel{:} gives the "next" parameter combinations from parameter combination i (where i is a number 1,2,...) for PC-AC, EC-MC, PC-SC, and EC-SC. The meaning of "next" is explained in step 4 of the parameter sweep (section 5 of the SI). Typing runShort.seed{i}.parallel{:} gives the "next" parameter combinations from parameter combination i for PC-MC and EC-AC.</p> <p>The terminal folders contain the solutions and have the following files:<br> brainNashDeep.m -> the master file launching the iteration of best responses.<br> brainMainDeep.m -> the file launching one iteration solving the optimal control problem to find best response.<br> brainMainTestRunDeep.m -> runs a test to check if there are infeasibility warnings.<br> brainContinuous.m -> specifies the dynamic constraints.<br> brainEndpoint.m -> specifies the terminal constraints.<br> parameters.m -> specifies the parameter values and rescales them to rescale units as specified in section 5 of the SI.<br> getSolution.m -> extracts solution.<br> plots.m -> plots solutions over best response iterations.<br> brainPlot.m -> plots solution of a given best response iteration.<br> guessDeep.mat -> initial guess and resident used.<br> solutionNashDeep.mat -> solutions over best response iterations.<br> solutionDeep.mat -> solution of last best response iteration.</p> <p> </p>
Revisiting the diffuse layer polarization of a spherical grain in electrolytes with numerical solutions of Nernst-Planck-Poisson equations
<p>These datasets contain the Comsol files that were used in the publication "Revisiting the diffuse layer polarization of a spherical grain in electrolytes with numerical solutions of Nernst-Planck-Poisson equations", which is submitted to the Journal of Geophysical Research: Solid Earth. </p> <p>Note:</p> <ol> <li>file parallel plate_static.mph is the model used to generate numerical results in Figure 2</li> <li>file parallel plate_dynamic.mph is the model used to generate numerical results in Figure 3</li> <li>file grain_mechanism.mph is the model used to generate numerical results in Figures 4, 5, 6, 7, and 8</li> <li>file grain_salinity.mph is the model used to generate numerical results in Figures 9, 10, 11, and 12</li> <li>the solutions in the mph files are cleared to reduce file size. The solutions can be reproduced by conducting "solve" </li> </ol>
Non-spherical particles in optical tweezers: a numerical solution
<p>We present numerical methods for modeling the dynamics of arbitrarily shaped particles trapped within optical tweezers, which improve the predictive power of numerical simulations for practical use. We study the dependence of trapping on the shape and size of particles in a single continuous wave beam setup. We also consider the implications of different particle compositions, beam types and media. The major result of the study is that for different irregular particle shapes, a range of beam powers generally leads to trapping. The trapping power range depends on whether the particle can be characterized as elongated or flattened, and the range is also limited by Brownian forces.</p> <p>This dataset supplements the publication and contains inputs and processing scripts for usage of scadyn (https://www.github.com/jherrane/scadyn) software for solving dynamical response of arbitrarily shaped particles in electromagnetic fields. Also is contained the minimal dataset (per PLos ONE standards) to reproduce the results presented.</p>
Dataset for the Figure 2 in manuscript "Numerical study of coupled water and vapour flow, heat transfer, and solute transport in variably-saturated deformable soil during freeze-thaw cycles"
<p>This dataset includes the gathered experimental measurements of a freezing test by Wu (2017) for the model's verification shown in Figure 2 of the manuscript entitled 'Numerical study of coupled water and vapour flow, heat transfer, and solute transport in variably-saturated deformable soil during freeze-thaw cycles'' by Huang, X., and Rudolph, D.L.</p>
A Benchmark Analytical Solution for Variable Viscosity Flow in Fractured Media: Development and Comparative Analysis with Numerical Simulations
<p>This data is associated with <strong>(a) Figure 3.</strong> Comparison between the velocities obtained through analytical calculations and those estimated numerically, and <strong>(b) Figure 4.</strong> Comparison of the BTCs obtained through analytical calculations and those estimated numerically.</p>
Reference solutions for "A validated non-linear Kelvin-Helmholtz benchmark for numerical hydrodynamics"
<p>This dataset contains hdf5 files with reference solutions to the validated non-linear Kelvin-Helmholtz benchmark problem described in <a href="https://doi.org/10.1093/mnras/stv2564">Lecoanet et al. (2016)</a>. The hdf5 files include snapshots at t=2, 4, 6, 8 for the Re=10^5 D4096 simulation with Δρ/ρ0=1 (5_4096_2_*.h5), the Re=10^5 D2048 simulation with Δρ/ρ0=0 (5_2048_1_*.h5), and the Re=10^6 D2048 simulation with Δρ/ρ0=0 (6_2048_1_*.h5). The velocity, density, temperature, and dye field are contained in the tasks group. The exact output time and the grid are contained in the scales group.</p>
A numerical exploration of hyporheic zone solute transport behavior estimated from electrical resistivity inversions
<p>1). We run the Comsol model (ER3D_cs300ws6ds20_Zxl1.m) with an electrical push-pull loop, and then the voltage at every electrode of each time is printed to model_name.out and resistivity to model_name.ro. </p> <p>2). superposition.m is used to create final voltage results for later use in R2 inversions.</p> <p>3). postproc_c_dual.m is used to create the pixel breakthrough curves of the simulated results.</p> <p>4). plot_c_comsol.m read the resistivity result from step (1), convert the resistivity to bulk EC, and plot the bulk EC contour map. </p> <p>5). protocal_pc.m is used to take the voltages, add some random noise, and make the input files and batch scripts for R2.</p> <p>6). runr2.bat and runr2_TL.bat are used to generate inverted bulk EC.</p> <p>7). plot_C_r2_dual.m is used to plot the inversed bulk EC.</p>
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.