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137 results for “Mixed Model”
Mixed DG-FEM for the Darcy-Brinkman-Stokes model: supplementary simulation data
<p>This dataset contains simulation results used in the publication<em> "Stable across regimes: A mixed DG method for Darcy-Brinkman-Stokes type flows"</em>. Detailed descriptions of the individual cases can be found in the paper.</p> <p>The simulation outputs are enriched with the respective inputs used to set up the finite element simulations. Setups include definition of the mesh (sizes), material and numerical parameters. Setups are given as Python for scripted inputs (e.g. function definitions) and human-readable <em>.yaml</em> files for simple parameters. <br><br>Simulation outputs are written in paraview .vtk and .vtu files, which are contained in the <em>outputs/MODEL_NAME/paraview</em> folder of the respective simulation. <em>MODEL_NAME</em> corresponds to the model. See also the <em>readme.md.</em></p> <p>The additional folder <em>figure_collection</em> contains the raw result plots from the publication, along with the respective simulation inputs used to obtain the figure.</p>
Data for figures in the Publication "The importance of mixed-phase and ice clouds for climate sensitivity in the global aerosol–climate model ECHAM6-HAM2"
<p>This repository contains the data to produce figures for the paper:</p> <p>"Lohmann, U. and Neubauer, D.: The importance of mixed-phase and ice clouds for climate sensitivity in the global aerosol–climate model ECHAM6-HAM2, Atmos. Chem. Phys., 18, 8807–8828, https://doi.org/10.5194/acp-18-8807-2018, 2018."</p> <p>Note that the scripts are to be found in the accompanying package (https://doi.org/10.5281/zenodo.8183412)</p>
Minimal dataset for "Insights to HIV-1 coreceptor usage by estimating HLA adaptation with Bayesian generalized linear mixed models"
<p>This repository contains a minimal data set to reproduce all results that don't compromise the privacy concerns for the manuscript "Insights to HIV-1 coreceptor usage by estimating HLA adaptation with Bayesian generalized linear mixed models".<br> <br> The repository contains the following data:</p> <ul> <li>adaptscore_acute.csv <ul> <li>A csv file that contains the estimated adaptation scores for the acute data set with HLA I model.</li> </ul> </li> <li>adaptscore_leftout.csv <ul> <li>A csv file that contains the estimated adaptation scores for the leftout data set with the joint HLA I and HLA II model</li> </ul> </li> <li>adaptscore_training.csv <ul> <li>A csv file that contains the estimated adaptation scores for the traininig data set with the joint HLA I and HLA II model</li> </ul> </li> <li>adaptscore_training_hla1_without_clin.csv <ul> <li>A csv file that contains the estimated adaptation scores for the training data set with the HLA I model (via cross-validation)</li> </ul> </li> <li>adaptscore_training_seed2.csv <ul> <li>A csv file that contains the estimated adaptation scores for the training data set with the joint HLA I and HLA II model via cross-validation with another seed</li> </ul> </li> </ul>
3-D model data used to investigate the role of K-feldspar and quartz in global ice nucleation by mineral dust in mixed-phase clouds
<p>These simulations were run by Chemical Transport Model TM4-ECPL covering the years 2009-01 to 2016-12 and are used for the bellow publication:</p> <p>Chatziparaschos, M., Daskalakis, N., Myriokefalitakis, S., Kalivitis, N., Nenes, A.,<br> Gonçalves Ageitos, M., Costa-Surós, M., Pérez García-Pando, C., Zanoli, M., Vrekoussis,<br> M., and Kanakidou, M.: Role of K-feldspar and quartz in global ice nucleation by mineral dust in mixed-phase clouds,<br> Atmos. Chem. Phys. Discuss. [preprint], https://doi.org/10.5194/acp-2022-551, in press 2023.</p> <p>Laboratory: Environmental Chemical Processes Laboratory (EPCL), Department of Chemistry, University of Crete, Heraklion.<br> contact: Kanakidou Maria <mariak@uoc.gr></p> <p>Model resolution: 2x3<br> Model Levels: 25</p> <p>Data info:</p> <p>DU_m2m(time, lev, lat, lon)<br> short_name :DU_m2m<br> long_name : Dust mode 2 mass accumulation</p> <p>DU_m3m(time, lev, lat, lon)<br> short_name : DU_m3m<br> long_name : Dust mode 3 mass coarse</p> <p>qua2_acc(time, lev, lat, lon)<br> short_name :qua2_acc<br> long_name :Quartz – accumulation mode</p> <p>qua2_coa(time, lev, lat, lon)<br> short_name :qua2_coa<br> long_name :Quartz – coarse mode</p> <p>FEL_acc(time, lev, lat, lon)<br> short_name :FEL_acc<br> long_name : K-Feldspar – accumulation mode</p> <p>FEL_coa(time, lev, lat, lon)<br> short_name :FEL_coa<br> long_name : K-Feldspar – coarse mode</p> <p>INP_QUA(time, lev, lat, lon)<br> short_name :INP_QUA<br> long_name :Ice Nucleating Particles derived form Quartz</p> <p>INP_FELD(time, lev, lat, lon)<br> short_name :INP_FELD<br> long_name :Ice Nucleating Particles derived form K-Feldpsar</p> <p> </p>
Data from: Identifying priority areas for spatial management of mixed fisheries using ensemble of multi-species distribution models. Panzeri D. et al., 2023, Fish and Fisheries
<p>Panzeri D.<sup>1</sup>, Russo T., Arneri E., Carlucci R., Cossarini G., Isajlović I., Krstulović Šifner S., Manfredi C., Masnadi F., Reale M., Scarcella G., Solidoro C., Spedicato M.T., Vrgoč N., W. Zupa, Libralato S<sup>2</sup>.</p> <p><sup>1 </sup>dpanzeri@ogs.it<br> <sup>2 </sup>slibralato@ogs.it</p> <p>Spatial fisheries management is widely used to reduce overfishing, rebuild stocks, and protect biodiversity. However, the effectiveness and optimization of spatial measures depend on accurately identifying ecologically meaningful areas, which can be difficult in mixed fisheries. To apply a method generally to a range of target species, we developed an ensemble of species distribution models (e-SDM) that combines general additive models, generalized linear mixed models, random forest, and gradient-boosting machine methods in a training and testing protocol. The e-SDM was used to integrate density indices from two scientific bottom trawl surveys with the geopositional data, relevant oceanographic variables from the three-dimensional physical-biogeochemical operational model, and fishing effort from the vessel monitoring system. The determined best distributions for juveniles and adults are used to determine hot spots of aggregation based on single or multiple target species. We applied e-SDM to juvenile and adult stages of 10 marine demersal species representing 60% of the total demersal landings in the central areas of the Mediterranean Sea. Using the e-SDM results, hot spots of aggregation and grounds potentially more selective were identified for each species and for the target species group of otter trawl and beam trawl fisheries. The results confirm the ecological appropriateness of existing fishery restriction areas and support the identification of locations for new spatial management measures.</p> <p>Data (csv) for Panzeri et al. 2023</p> <p>1. <a href="https://zenodo.org/api/files/0b1b7af4-6a3b-481d-8d5f-57cf02d20eaa/Ensemble_density_F%26F_D.Panzeri_et_al_2023.csv">Ensemble_density_F&F_D.Panzeri_et_al_2023.csv: CSV file with density values (column pred) in terms of number of individuals (log N/km2) for each species (column sp) and life stage (column age) for each grid cell (X = longitude and Y = latitude).</a> </p> <p>2. <a href="https://zenodo.org/api/files/0b1b7af4-6a3b-481d-8d5f-57cf02d20eaa/Ensemble_density_F%26F_D.Panzeri_et_al_2023.csv">Getis_hotspot_F&F_D.Panzeri_et_al_2023.csv: CSV file with Getis ord Gi* values (column Gi) derived from the previous file 1, developed for each species and life stage for each grid cell (X = longitude and Y = latitude).</a></p> <p>3. <a href="https://zenodo.org/api/files/0b1b7af4-6a3b-481d-8d5f-57cf02d20eaa/Ensemble_density_F%26F_D.Panzeri_et_al_2023.csv">Multispecies_HotSpot_F&F_D.Panzeri_et_al_2023.csv: Frequency map expressed as the number of species for each grid cell (column freq) that has the hotspot (previous file 2) above the third quartile.</a></p> <p> </p> <p> </p>
A mixed mode cohesive model for FRP laminates incorporating large scale bridging behaviour - Datasets
<p>This data upload includes the experimental results from delaminating FRP-laminates. The experiment consists of DCB specimens where the beam ends are loaded with bending moments. A set-up of LVDTs and a clip-on extensometer are used to calculate the normal and tangential opening displacements at the crack-end.</p> <ul> <li>The test specimens are described in the file "CHO test matrix 130405B.xlsx"</li> <li>The load-displacement data for all specimens are given in the folder "DCB UBM - Experimental results.zip"</li> <li>Acoustic emission recording from the tests are given in the folder "DCB UBM - Acoustic Emission.zip"</li> <li>A set of images for each specimen during testing is given in the folder "DCB Images.zip"</li> </ul> <p>This test series is examined and described in the following peer reviewed papers:</p> <p>R.K. Joki, F. Grytten, B. Hayman, B.F. Sørensen, <em>A mixed mode cohesive model for FRP laminates incorporating large scale bridging behaviour</em>, Engineering Fracture Mechanics, 239, November 2020, <a href="https://doi.org/10.1016/j.engfracmech.2020.107274">https://doi.org/10.1016/j.engfracmech.2020.107274</a></p> <p>R.K. Joki, F. Grytten, B. Hayman, B.F. Sørensen, <em>Determination of a cohesive law for delamination modelling – Accounting for variation in crack opening and stress state across the test specimen width</em>, Composites Science and Technology, 128, 18 May 2016, <a href="https://doi.org/10.1016/j.compscitech.2016.01.026">https://doi.org/10.1016/j.compscitech.2016.01.026</a></p>
The Sonora Substellar Atmosphere Models. IV. Elf Owl: Atmospheric Mixing and Chemical Disequilibrium with Varying Metallicity and C/O Ratios (T- type Models)
<ul> <li><strong>Overview of V2: "The Sonora Substellar Atmosphere Models. V: A Correction to the Disequilibrium Abundance of CO2 for Sonora Elf Owl"</strong></li> </ul> <p> Version 2 of the Sonora Elf Owl Models updates the CO2 and PH3 abundances and spectra. As described in the Wogan et al. (2024) research note (URL OF NOTE GOES HERE), Version 1 of the models did not apply the CO2 quench approximation properly resulting in predicted CO2 abundances that were too small by several orders of magintude in some cases. Version 2 fixes this mistake, updating CO2 abundances and the emission spectra to reflect the new CO2 abundances. Version 2 also removes all spectra contributions of PH3 because Version 1 consistently contained too much PH3 absorption when compared to JWST data (Veiler et al. 2024, <a href="http://doi.org/10.3847/1538-4357/ad6759" target="_blank" rel="noopener noreferrer">http://doi.org/10.3847/1538-4357/ad6759</a>).</p> <p> </p> <ul> <li><strong>Overview of V1</strong></li> </ul> <p> The Sonora Elf Owl Models is a successor to the <a href="../records/5063476#:~:text=This%20particular%20set%20of%20model,g%20are%200.25%20or%200.5.">Sonora Bobcat</a> and <a href="../records/4450269">Sonora Cholla</a> models. The Sonora Elf Owl model grid includes cloud-free radiative-convective equilibrium model atmospheres with vertical mixing induced disequilibrium chemistry with sub-solar to super-solar atmospheric metallicities and Carbon-to-Oxygen ratio. The atmospheric models have been computed using the open-source radiative-convective equilibrium model <a href="https://natashabatalha.github.io/picaso/">PICASO</a>. The parameters included within this grid are effective temperature (<strong><em>Teff</em></strong>), gravity (<strong><em>log(g)</em></strong>), vertical eddy diffusion coefficient (<strong><em>log(Kzz)</em></strong>), atmospheric metallicity (<strong><em>[M/H]</em></strong>), and Carbon-to-Oxygen ratio (<strong><em>C/O</em></strong>).</p> <p>The ranges and increments of these parameters are described in the published paper.<br><br></p> <ul> <li><strong>Three grids available on three links</strong></li> </ul> <p><strong> The model grid has been presented using three Zenodo repositories. This repository has all the models between 575 to 1200 K (applicable for T- type objects). The models for Teff between 275 to 550 K (applicable for Y- type objects) are available in the Zenodo DOI :- <a href="../records/10381250">https://zenodo.org/records/10381250</a>. The models for Teff between 1300 to 2400 K (applicable for L- type objects) are available in the Zenodo DOI :- <a href="../records/10385987">https://zenodo.org/records/10385987</a>.</strong></p> <p> </p> <ul> <li><strong> File types and how to use them</strong></li> </ul> <p> The models have been presented in the Xarray format so that all the atmospheric properties including the T(P) profile, atmospheric chemistry, and thermal emission spectra can be accessed within the same files. A python based Jupyter notebook named "Reading and plotting Elf Owl Models.ipynb" has been also supplied which demonstrates how to open and use these files.</p> <ul> <li> <strong>Spectra</strong></li> </ul> <p> The emission spectra for each atmospheric model has been computed between 0.6 to 15 microns. The reported flux is in the units of erg/s/cm<sup>2</sup>/cm. Note that these fluxes need to be multiplied with R<sup>2</sup>/D<sup>2</sup> before comparing them with the typically observed flux of brown dwarfs/exoplanets. R is the radius of the object, and D is the distance here.</p> <div> </div> <div> <ul> <li><strong>Note on CH4</strong></li> </ul> </div> <p> As stated in <a href="https://ui.adsabs.harvard.edu/abs/2023ApJ...942...71M/abstract">Mukherjee et al. 2023 </a>our CH4 opacity is derived using the <a href="https://iopscience.iop.org/article/10.3847/1538-4365/ab7a1a">Hargreaves et al. 2020</a> HITEMP line list and computed using the HAPI code (<a href="https://www.sciencedirect.com/science/article/abs/pii/S0022407315302466">Kochanov et al. 2016</a>). HAPI automatically pre-weights the isotopologues according to earth abundances that are listed on the HITRAN website (<a href="https://hitran.org/lbl/2?6=on" target="_blank" rel="noopener noreferrer">see here for CH4</a>). Therefore, users should note that there will be minor features of CH3D included in the models. Given the general absence of deuterated molecules in brown dwarfs (Teff>~300) we will include a second posting of models which includes the Elf Owl grid with <strong>only</strong> the major CH4 isotopologue (12C-H4).</p> <div> <ul> <li><strong>Note on PH3</strong></li> </ul> </div> <p> PH3 abundance is treated separately from the general disequilibrium scheme. This is because of the current non-detection of PH3 in many brown dwarf atmospheres (see citations in paper). The current PH3 treatment uses the chemical equilibrium treatment described in Visscher et al. However, after publishing this grid and using the model for analysis of high precision JWST data, we noticed that even the simple chemical equilibrium treatment which reduces the abundance, introduces a noticeable PH3 feature. Therefore in our v2 of this model grid we will further diminish the abundance.</p>
The Sonora Substellar Atmosphere Models. IV. Elf Owl: Atmospheric Mixing and Chemical Disequilibrium with Varying Metallicity and C/O Ratios (L- type Models)
<ul> <li><strong>Overview of V2: "The Sonora Substellar Atmosphere Models. V: A Correction to the Disequilibrium Abundance of CO2 for Sonora Elf Owl"</strong></li> </ul> <p> Version 2 of the Sonora Elf Owl Models updates the CO2 and PH3 abundances and spectra. As described in the Wogan et al. (2024) research note (URL OF NOTE GOES HERE), Version 1 of the models did not apply the CO2 quench approximation properly resulting in predicted CO2 abundances that were too small by several orders of magintude in some cases. Version 2 fixes this mistake, updating CO2 abundances and the emission spectra to reflect the new CO2 abundances. Version 2 also removes all spectra contributions of PH3 because Version 1 consistently contained too much PH3 absorption when compared to JWST data (Veiler et al. 2024, <a href="http://doi.org/10.3847/1538-4357/ad6759" target="_blank" rel="noopener noreferrer">http://doi.org/10.3847/1538-4357/ad6759</a>).</p> <p> </p> <ul> <li><strong>Overview of V1</strong></li> </ul> <p> The Sonora Elf Owl Models is a successor to the <a href="../records/5063476#:~:text=This%20particular%20set%20of%20model,g%20are%200.25%20or%200.5.">Sonora Bobcat</a> and <a href="../records/4450269">Sonora Cholla</a> models. The Sonora Elf Owl model grid includes cloud-free radiative-convective equilibrium model atmospheres with vertical mixing induced disequilibrium chemistry with sub-solar to super-solar atmospheric metallicities and Carbon-to-Oxygen ratio. The atmospheric models have been computed using the open-source radiative-convective equilibrium model <a href="https://natashabatalha.github.io/picaso/">PICASO</a>. The parameters included within this grid are effective temperature (<strong><em>Teff</em></strong>), gravity (<strong><em>log(g)</em></strong>), vertical eddy diffusion coefficient (<strong><em>log(Kzz)</em></strong>), atmospheric metallicity (<strong><em>[M/H]</em></strong>), and Carbon-to-Oxygen ratio (<strong><em>C/O</em></strong>).</p> <p>The ranges and increments of these parameters are described in the published paper.<br><br></p> <ul> <li><strong>Three grids available on three links</strong></li> </ul> <p><strong> The model grid has been presented using three Zenodo repositories. This repository has all the models between 1300 to 2400 K (applicable for L- type objects). The models for Teff between 275 to 550 K (applicable for Y- type objects) are available in the Zenodo DOI :- <a href="../records/10381250">https://zenodo.org/records/10381250</a>. The models for Teff between 575 to 1200 K (applicable for T- type objects) are available in the Zenodo DOI :- <a href="../records/10385821">https://zenodo.org/records/10385821</a>.</strong></p> <p> </p> <ul> <li><strong> File types and how to use them</strong></li> </ul> <p> The models have been presented in the Xarray format so that all the atmospheric properties including the T(P) profile, atmospheric chemistry, and thermal emission spectra can be accessed within the same files. A python based Jupyter notebook named "Reading and plotting Elf Owl Models.ipynb" has been also supplied which demonstrates how to open and use these files.</p> <ul> <li> <strong>Spectra</strong></li> </ul> <p> The emission spectra for each atmospheric model has been computed between 0.6 to 15 microns. The reported flux is in the units of erg/s/cm<sup>2</sup>/cm. Note that these fluxes need to be multiplied with R<sup>2</sup>/D<sup>2</sup> before comparing them with the typically observed flux of brown dwarfs/exoplanets. R is the radius of the object, and D is the distance here.</p> <div> </div> <div> <ul> <li><strong>Note on CH4</strong></li> </ul> </div> <p> As stated in <a href="https://ui.adsabs.harvard.edu/abs/2023ApJ...942...71M/abstract">Mukherjee et al. 2023 </a>our CH4 opacity is derived using the <a href="https://iopscience.iop.org/article/10.3847/1538-4365/ab7a1a">Hargreaves et al. 2020 </a>HITEMP line list and computed using the HAPI code (<a href="https://www.sciencedirect.com/science/article/abs/pii/S0022407315302466">Kochanov et al. 2016</a>). HAPI automatically pre-weights the isotopologues according to earth abundances that are listed on the HITRAN website (<a href="https://hitran.org/lbl/2?6=on" target="_blank" rel="noopener noreferrer">see here for CH4</a>). Therefore, users should note that there will be minor features of CH3D included in the models. Given the general absence of deuterated molecules in brown dwarfs (Teff>~300) we will include a second posting of models which includes the Elf Owl grid with <strong>only</strong> the major CH4 isotopologue (12C-H4).</p> <div> <ul> <li><strong>Note on PH3</strong></li> </ul> </div> <p> In v1, PH3 abundance was treated separately from the general disequilibrium scheme. This is because of the current non-detection of PH3 in many brown dwarf atmospheres (see citations in paper). The current PH3 treatment uses the chemical equilibrium treatment described in Visscher et al. However, after publishing this grid and using the model for analysis of high precision JWST data, we noticed that even the simple chemical equilibrium treatment which reduces the abundance, introduces a noticeable PH3 feature. In v2 we completely remove the contribution of PH3. </p>
Dataset for "Experimental and Modeling Insights into Mixing-Limited Reactive Transport in Heterogeneous Porous Media: Role of Stagnant Zones"
<p>This dataset contains the observed and simulated BTC of bimolecular transport experiment that was involved in "Yin et al., Experimental and Modeling Insights into Mixing-Limited Reactive Transport in Heterogeneous Porous Media: Role of Stagnant Zones".</p>
Using satellite observations to evaluate model microphysical representation of Arctic mixed-phase clouds
<p>This is data from several atmosphere-only GCM experiments used to investigate the impacts of changing mixed-phase microphysical parameters in the CAM6 atmospheric model. Details and results from these simulations is presented in the submitted manuscript "Using satellite observations to evaluate model microphysical representation of Arctic mixed-phase clouds". A preprint of this manuscript can be found at https://www.essoar.org/doi/10.1002/essoar.10506728.2.</p> <p>An included README file describes organization of files. For any questions, please contact jonah.shaw@colorado.edu.</p>
Stable Isotope Mixing Models Demonstrate the Role of an Invasive Plant in Wetland Songbirds Food Webs
<p>We used analysis of natural abundance stable isotopes of <sup>13</sup>C and <sup>15</sup>N in song sparrow blood, invertebrate food sources, <em>L. latifolium </em>seeds,<em> </em>and other marsh<em> </em>plant seeds to inform Bayesian, concentration-dependent mixing models that predicted average song sparrow diets. Data presented are the csv files and R markdown code for the isotope analysis.</p>
Phanerozoic global climatic fields simulated using the mixed-layer general circulation model FOAM
<p>These files contain the output of Phanerozoic global climate simulations conducted using the “slab” mixed-layer ocean-atmosphere general circulation model FOAM. They are available every 20 Myrs between 540 Ma and 0 Ma, both included. Boundary conditions were adapted to best match each time slice. Continental reconstructions were taken from Scotese and Wright (https://www.earthbyte.org/paleodem-resource-scotese-and-wright-2018/). We defined pCO2 after the proxy data compilation of Foster et al. (doi:10.1038/ncomms14845) when available and Krause et al. (dot:10.1038/s41467-018-06383-y) for older time slices. Solar luminosity followed Gough et al. (doi:10.1007/BF00151270). Continental vegetation was set to Modern-like latitudinal bands between 0 Ma and 100 Ma (included), tropical evergreen, broad-leaved forest between 120 Ma and 360 Ma (included), tundra between 380 Ma and 440 Ma (included) and rocky desert afterwards. The orbital configuration was set to null eccentricity and minimum obliquity. </p> <p>The reader is referred to the associated paper for a full description of the model and boundary conditions.</p> <p>All model output file names use the following pattern: « [age]ebP2_solCgough1981_EccN_pCO2FosterKr_[model_component] _slab.nc", with [age], the age expressed in million years ago, and [model_component] being 'atmos' or 'coupl' (atmospheric component or coupler). For each time slice, the topography-bathymetry data used in FOAM is also provided (« Topobathy_[age]eb_postslarti_cor.nc »).</p>
SI Figure 1: Dispersion values (a boxplot using distance to centroids based on Bray Curtis distance matrix) of external and internal bacterial microbiome composition for different hosts. In a mixed linear model, microinvertebrates did not significantly impact dispersion (P=0.44), but microbiome type did (P=0.03). Pairwise contrasts show that while external microbiomes of P. murrayi and Tardigrada are more variable than their internal microbiomes, E. antarcticus external and internal microbiomes are equally variable. in External and internal microbiomes of Antarctic nematodes are distinct, but more similar to each other than the surrounding environment
SI Figure 1: Dispersion values (a boxplot using distance to centroids based on Bray Curtis distance matrix) of external and internal bacterial microbiome composition for different hosts. In a mixed linear model, microinvertebrates did not significantly impact dispersion (P=0.44), but microbiome type did (P=0.03). Pairwise contrasts show that while external microbiomes of P. murrayi and Tardigrada are more variable than their internal microbiomes, E. antarcticus external and internal microbiomes are equally variable.
WV-TTL: water vapor mixing ratio from GEOSCCM and trajectory model simulations in tropical tropopause layer
<p>This dataset includes 100 hPa water vapor mixing ratio simulated from a trajectory transport model and a climate-chemistry model in the tropical tropopause layer from 2005 to 2016 in the format of netCDF. The data are monthly and have three dimensions as lon/lat/time in the unit of parts per million by volume.</p> <p>Also included the tropical average time series of indices for Brewer-Bobson circulation (BDC), tropospheric temperature and/or Quasi-biennial Oscillation (QBO) from ERAi/MERRA-2/GEOSCCM. These indices are used in a multivariate regression.</p>
New Ideas for Brain Modelling 4-Figure 2. One level of linking in a temporal model defines a particular ensemble mix.
<p> The image processing of section 0 has already been tried in de Campos, Babu and Varma (2009), where they tested the full dataset. Their results were better overall, with maybe 55% accuracy and over a larger dataset. As stated however, the tests here are only initial results and it would be expected that some improvement would be possible, especially if the images can be scaled. The recently found paper Kowalski (1972) looks significant and the general architecture (Greer, 2016, figure 2, for example)) could have analogies with bi-directional searches in the and-or with theorem-proving graphs architecture of that paper. As suggested, and-or could work from goals to axioms (the neural network in the general model and theorem-proving from axioms to goals (the concept trees in the general model). The paper Sukanya and Gayathri (2013) models at a higher behaviour level, but it is interesting that the behaviours are considered to be unique (time or sequence-based) sets of events and these event patterns are then clustered, rather than each individual event. The idea of using unique sets of nodes to cluster with has also been used for the symbolic neural network (Greer, 2011).</p>
Convective boundary mixing in a post-He core burning massive star model: Collapse and starlog data
<p>The starlog data and collapse profiles from the publication, Convective boundary mixing in a post-He core burning massive star model. </p> <p>The full directories including the MESA profiles can be found here: http://www.canfar.net/storage/list/nugrid/data/projects/Davis2019_CBM_M25</p>
Data: Testing the mating system model of parasite complex life cycle evolution reveals demographically driven mixed mating
<p>Abstract: Many parasite species use multiple host species to complete development; however, empirical tests of models that seek to understand factors impacting evolutionary changes or maintenance of host number in parasite life cycles are scarce. Specifically, Brown et al.’s (2001) mating system model, which posits multi-host life cycles are an adaptation to prevent inbreeding in hermaphroditic parasites and thus, preclude inbreeding depression, remains untested. The model assumes loss of a host results in parasite inbreeding and predicts host loss can only evolve if there is no parasite inbreeding depression. <a name="_Hlk169780726"></a>We provide the first empirical tests of this model using a novel approach we developed for assessing inbreeding depression from field-collected, parasite samples. The method compares genetically-based, selfing-rate estimates to a demographic-based selfing rate, which was derived from the closed mating system experienced by endoparasites. Results from the hermaphroditic trematode <em>Alloglossidium renale</em>, which has a derived 2-host life cycle, supported both the assumption and prediction of the mating system model as this highly inbred species had no indication of inbreeding depression. Additionally, comparisons of genetic and demographic selfing rates revealed <a name="_Hlk169781073"></a>a mixed mating system that could be explained completely by the parasite’s demography, i.e., its infection intensities.</p>
Secondary Data for: Enhanced Modeling of Back-Mixing in Chemical Reactor Networks
<p>Secondary data for the results presented in the preprint "Enhanced Modeling of Back-Mixing in Chemical Reactor Networks" by L. Gossel, M. Fricke and D. Bothe (2023). </p> <p>https://arxiv.org/abs/2305.11591</p> <p>Tables containing the secondary data of the results presented in Figure 5, a-d are provided. </p> <p>The used code is confidential and thus not included in the repository. </p> <p>Funded by the Hessian Ministry of Higher Education, Research, Science and the Arts - cluster project Clean Circles. </p>
Processed data used for JGR publication "Role of Midwater Mixed Waves in the Loop Current Separation Events from A Coupled Ocean-Atmosphere Regional Model and In-Situ Observations"
<p>This is the processed dataset used in the JGR publication "Role of Midwater Mixed Waves in the Loop Current Separation Events from A Coupled Ocean-Atmosphere Regional Model and In-Situ Observations" by Xiao Ge.</p> <p>Please contact the author (gexiao@tamu.edu) for all the original/processed outputs of R-CESM, and use the following original papers as citations.</p> <p>The dataset used in this research includes:</p> <p>1. Loop Current Dynamics 2009-2011: LC_*.nc is the processed (reorganized) data for each in-situ station, * represents their station ID</p> <ul> <li>https://digital.library.unt.edu/ark:/67531/metadc955416/</li> <li>https://www.sciencedirect.com/science/article/pii/S0377026516301348?via%3Dihub</li> <li>https://search.dataone.org/view/%7BBD2513E6-3B34-4B7C-BCB9-3C4ED5E8D0FB%7D</li> </ul> <p>2. Regional Community Earth System Model, R-CESM: <a href="https://zenodo.org/api/records/13932074/draft/files/h.nc/content" target="_blank" rel="noopener noreferrer">h.nc</a> is the bathymetry data of R-CESM; cmpr_*.nc files are provided as examples of the original R-CESM outputs; pvsf_prho_*.nc are the processed (subsampled at the target region and interpolated on potential density layers, derived stream function, potential vorticity, and relative vorticity) R-CESM outputs used in this research; and <a href="https://zenodo.org/uploads/13932074" target="_blank" rel="noopener noreferrer">LC_pv_40hlp_2013.nc</a> is the example of organized processed R-CESM (pvsf_prho_*.nc files) containing potential vorticity and relative vorticity for figures plotting</p> <ul> <li>https://journals.ametsoc.org/view/journals/bams/102/9/BAMS-D-20-0024.1.xml?tab_body=fulltext-display</li> </ul> <p> </p> <p> </p> <p> </p> <p> </p>
Data for: Modeling the transition of death assemblages through the mixed layer predicts a downcore increase in time averaging
<p>Understanding how time averaging changes during the burial is essential for using Holocene and Anthropocene cores to analyze ecosystem change, given the many ways in which the time averaging affects biodiversity measures. Here, we use transition-rate matrices to explore how time averaging changes downcore when shells transit through a taphonomically-complex mixed layer into permanently-buried historical layers: this is a null model, without any temporal changes in rates of sedimentation or bioturbation, to contrast with downcore patterns that might be produced by human activity. Assuming stochastic burial and exhumation movements of shells between increments within the mixed layer and stochastic disintegration within increments, almost all combinations of net sedimentation, mixing, and disintegration produce a downcore increase in time averaging (interquartile range, IQR), typically associated with a decrease in kurtosis and skewness and with a shift from right-skewed to symmetrical age distributions. A downcore increase in time averaging is a null expectation wherever bioturbation generates an internally-structured mixed layer (i.e., a surface well-mixed layer is underlain by an incompletely-mixed layer), so that shells are mixed throughout the entire mixed layer at slower rate than they are buried below it by sedimentation. This downcore trend created by mixing is further amplified by the downcore decline in disintegration rate. Using data from the southern California shelf, we find that transition-rate matrices accurately reproduce the downcore changes in IQR, skewness, and kurtosis observed in sediment cores. The right-skewed distributions typical of surface death assemblages – the focus of most actualistic research – might be fossilized under exceptional conditions of episodic anoxia or sudden burial. However, such right-skewed assemblages will not typically transfer into subsurface historical layers and thus will be geologically transient. The deep-time fossil record will be dominated instead by more time-averaged assemblages with weakly skewed age distributions that form in the lower parts of the mixed layer.</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.