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5,805 results for “Data model”
Task-driven neural network models predict neural dynamics of proprioception: Experimental data, activations and predictions of neural network models
<p>#############</p> <p>Task-driven neural network models predict neural dynamics of proprioception, Cell 2024</p> <p>#############</p> <p>Authors: Marin Vargas, Alessandro (orcid=0000-0001-7073-4120) and Bisi, Axel (orcid=0009-0006-8602-7555) and Chiappa, Alberto Silvio (orcid=0009-0001-2764-6552) and Versteeg, Christopher (orcid=0000-0002-4269-5109) and Miller, Lee E. (orcid=0000-0001-8675-7140) and Mathis, Alexander (orcid=0000-0002-3777-2202)</p> <p>Affiliation: EPFL</p> <p>Date: January, 2024</p> <p>Link to the Cell article:</p> <p><a href="https://www.cell.com/cell/pdf/S0092-8674(24)00239-3.pdf">https://www.cell.com/cell/pdf/S0092-8674(24)00239-3.pdf</a></p> <p>--------------------------------</p> <p>Here we provide the neural data, activation and predictions for the best models and result dataframes of our article "Task-driven neural network models predict neural dynamics of proprioception".</p> <p>It contains the behavioral and neural experimental data (cuneate nucleus and somatosensory recordings from the Miller Lab, Northwestern University), the result dataframes for task-driven and untrained models, the activations and predictions for the *best models for all tasks* for active and passive movements and the predictions for linear models for active and passive movements. </p> <p>Note, the predictions of other models can be computed from the network weights that were deposited for all trained models. </p> <p>The overall structure of the data is:</p> <p>└── exp_analysis<br> ├── results - Contains the result dataframe of the predictions for all models, tasks and primates<br> ├── activations<br> │ ├── active - Contains activations related to active movements<br> │ └── passive - Contains activations related to passive movements<br> ├── predictions<br> │ ├── active - Contains predictions related to active movements<br> │ └── passive - Contains predictions related to passive movements<br> └── beh_exp_datasets<br> ├── matlab_data - Contains raw behavioral and neural data<br> ├── MonkeyAlignedDatasets_new - Contains padded test behavioral input for generating network activations<br> ├── MonkeyDatasets - Contains not aligned padded test behavioral input for generating network activations<br> ├── MonkeySpikeRegressDatasets - Contains datasets for training data-driven models<br> ├── MonkeySpikeRegressDatasets_new - Contains trial index for regression splits <br> └── new_beh_exp_dataframe - Contains pre-processed behavioral and neural data</p> <p>--------------------------------</p> <p>The activations and predictions for the best 3 models and for all tasks are stored in experiments folder (in .h5 format) that follows the same name convention of the checkpoints.</p> <p>The checkpoints are stored in experiment folders (experiment_***) that follow this scheme:<br>- Task: shallow exp id, deep TCNs exp id, LSTM id.</p> <p>Experiment IDs for each task:</p> <p>- Untrained: 15, 115, 45<br>- Classification: 4015, 5015, 4045</p> <p>- Torque: 8015, 8030, 8045</p> <p>- Regress joint pos: 17016, 17031, 17046<br>- Regress joint vel: 17216, 17231, 17246<br>- Regress joint pos & vel:: 17416, 17431, 17446<br>- Regress joint pos & vel & acc:: 20516, 20531, 20546</p> <p>- Regress hand pos: 4016, 5016, 4046<br>- Regress hand vel: 17316, 17331, 17346<br>- Regress hand pos & vel: 17516, 17531, 17546<br>- Regress hand pos & vel & acc: 20416, 17831, 17846</p> <p>- Regress hand and elbow pos: 20016, 20031, 20046<br>- Regress hand and elbow vel: 20916, 20931, 20946<br>- Regress hand and elbow pos & vel: 20616, 20631, 20646<br>- Regress hand and elbow pos & vel & acc: 20816, 20831, 20846</p> <p>- Redundancy reduction: 10020, 10035, 10050<br>- Autoencoder 20716 & 20717, 20731 & 20732, X</p> <p> </p> <p>The code to process the behavioral data is available at: <a href="https://github.com/amathislab/Task-driven-Proprioception/tree/master/exp_data_processing">https://github.com/amathislab/Task-driven-Proprioception/tree/master/exp_data_processing</a><br>The code to load and use the models to generate activations and predictions is available at: <a href="https://github.com/amathislab/Task-driven-Proprioception/tree/master/neural_prediction">https://github.com/amathislab/Task-driven-Proprioception/tree/master/neural_prediction</a></p> <p>To reproduce the results, it is possible to reproduce the main figures using the result dataframe. See our repository for more details. </p> <p>--------------------------------</p> <p>The datasets, weights, activations and predictions are released with Creative Commons Attribution 4.0 license.</p> <p>The code is released under the MIT license, see <a href="https://github.com/amathislab/Task-driven-Proprioception">https://github.com/amathislab/Task-driven-Proprioception</a></p> <p>If you find our code, weights, predictions or ideas useful, please cite:</p> <p>@article{vargas2024task,<br> title={Task-driven neural network models predict neural dynamics of proprioception},<br> author={{Marin Vargas}, Alessandro and Bisi, Axel and Chiappa, Alberto S and Versteeg, Chris and Miller, Lee E and Mathis, Alexander},<br> journal={Cell},<br> year={2024},<br> publisher={Elsevier}<br>}</p>
Data from: A new mechanistic model for individual growth suggests upregulated maintenance costs when food is scarce in an insect
<p>In order to calibrate and evaluate a recently developed growth model, the Maintenance-Growth Model (MGM), for the case of growth under food restriction, empirical data for house crickets (<em>Acheta</em> <em>domesticus</em>) were collected and analysed. This data set contains data for individually reared crickets growing under two different regimes of controlled food limitation as well as data for food-limited cohorts of growing house crickets. The sets include temporal data for body mass and ingestion as well as age and size at maturation (imago emergence). The data for food-limited cohorts were collected prior to this study and parts of it have previously been analysed and presented in a publication on animal self-thinning. </p>
Input data for the OnStove Nepal model "AAchieving Nepal's clean cooking ambitions: an open source and geospatial cost–benefit analysis"
<p>This repository includes input data to run the OnStove Nepal model presented in the paper "<strong>Achieving Nepal's clean cooking ambitions: an open source and geospatial cost–benefit analysis</strong>" DOI: <a href="https://doi.org/10.1016/S2542-5196(24)00209-2">https://doi.org/10.1016/S2542-5196(24)00209-2</a>.</p> <p>The code and automated workflow to run the model can be found in the Github repository <a href="https://github.com/Open-Source-Spatial-Clean-Cooking-Tool/OnStove-Nepal">https://github.com/Open-Source-Spatial-Clean-Cooking-Tool/OnStove-Nepal</a>. All result files and figures can be downloaded from the permanent repository <a href="https://doi.org/10.5281/zenodo.10643983">https://doi.org/10.5281/zenodo.10643983</a>.</p> <p>The "<strong>GIS_input_data/</strong>" directory includes all the geospatial datasets needed to run the model. Each dataset folder contains a Source.md file describing the dataset, source, attribution, and license. To run the model extract the data inside your "<strong>1. Data</strong>"<strong> </strong>folder in your project. </p> <p>The "<strong>Scenario_inputs/</strong>" directory includes the CSV files with the input socio- and techno-economic data for the different scenarios. Sources for the socio- and techno-economic data can be found in the <strong>supplementary material</strong> of the related publication in the link <a href="https://doi.org/10.1016/S2542-5196(24)00209-2">https://doi.org/10.1016/S2542-5196(24)00209-2</a>. To run the model extract the scenario data inside your "<strong>2. Scenario inputs</strong>"<strong> </strong>folder in your project. </p>
Data for: Caspase-Based Fusion Protein Technology: Substrate Cleavability Described by Computational Modeling and Simulation
<p>This dataset contains all files necessary to set up the simulations conducted in this work. It further contains the scripts that were used to do the stitching and combining of the CASPON-tag and the N-termini of the POIs. The manuscript was just submitted and accepted: <a href="https://doi.org/10.1021/acs.jcim.4c00316">10.1021/acs.jcim.4c00316</a></p>
SDUST2020MGCR: a global marine gravity change rate model determined from multi-satellite altimeter data
<p>SDUST2020MGCR.nc is the global marine gravity change rate model covering 70°S~70°N and 0°~360°E on 5′×5′ grids. The dataset contains geospatial information (latitude, longitude), SDUST2020MGCR and an attachment data (GIA MGCR).</p>
Data for the submitted paper by Yasunari et al., "Comprehensive Impact of Changing Siberian Wildfire Severities on Air Quality, Climate, and Economy: MIROC5 Global Climate Model's Sensitivity Assessments"
<p>The dataset contains some of the outputs from the global climate model experiments by MIROC5 on changing Siberian wildfire severities, the other data used in the paper (see READ_ME files on the data sources), the analyzed data, and the scripts for analyses, which were used in the following submitted paper. Note that this dataset also includes unused data for the paper:</p> <p><br>Yasunari, T. J., D. Narita, T. Takemura, S. Wakabayashi, and A. Takeshima, Comprehensive Impact of Changing Siberian Wildfire Severities on Air Quality, Climate, and Economy: MIROC5 Global Climate Model's Sensitivity Assessments, submitted.</p> <p>Please read the READ_ME files for detailed information in each directory (especially see the "about_figures_and_tables/" directory first). Because of their large sizes, the data were separated into three zipped files.</p>
Data and trained models for: Human-robot facial co-expression
<p>Large language models are enabling rapid progress in robotic verbal communication, but nonverbal communication is not keeping pace. Physical humanoid robots struggle to express and communicate using facial movement, relying primarily on voice. The challenge is twofold: First, the actuation of an expressively versatile robotic face is mechanically challenging. A second challenge is knowing what expression to generate so that they appear natural, timely, and genuine. Here we propose that both barriers can be alleviated by training a robot to anticipate future facial expressions and execute them simultaneously with a human. Whereas delayed facial mimicry looks disingenuous, facial co-expression feels more genuine since it requires correctly inferring the human's emotional state for timely execution. We find that a robot can learn to predict a forthcoming smile about 839 milliseconds before the human smiles, and using a learned inverse kinematic facial self-model, co-express the smile simultaneously with the human. We demonstrate this ability using a robot face comprising 26 degrees of freedom. We believe that the ability co-express simultaneous facial expressions could improve human-robot interaction.</p>
Data for "Leveraging a Disdrometer Network to Develop a Probabilistic Precipitation Phase Model in Eastern Canada"
<p><a name="_Toc157072893"></a><strong>Abstract</strong>. This study presents a probabilistic model that partitions the precipitation phase based on hourly measurements from a network of radar-based disdrometers in eastern Canada. The network consists of 27 meteorological stations located in a boreal climate for the years 2020-2023. Precipitation phase observations showed a 2-m air temperature interval between 0-4°C where probabilities of occurrence of solid, liquid, or mixed precipitation significantly overlapped. Single-phase precipitation was also found to occur more frequently than mixed-phase precipitation. Probabilistic phase-guided partitioning (PGP) models of increasing complexity using random forest algorithms were developed. The PGP models classified the precipitation phase and partitioned the precipitation accordingly into solid and liquid amounts. PGP_basic is based on 2-m air temperature and site elevation, while PGP_hydromet integrates relative humidity. PGP_full includes all the above data plus atmospheric reanalysis data. The PGP models were compared to benchmark precipitation phase partitioning methods. These included a single temperature threshold model set at 1.5°C, a linear transition model with dual temperature thresholds of –0.38 and 5°C, and a psychrometric balance model. Among the benchmark models, the single temperature threshold had the best classification performance due to a low count of mixed-phase events. The other benchmark models tended to over-predict mixed-phase precipitation in order to decrease partitioning error. All PGP models showed significant phase classification improvement by reproducing the observed overlapping precipitation phases based on 2-m air temperature. In terms of partitioning error, PGP_full had the lowest RMSE and the least variability in performance. The RMSE of the single temperature threshold model was the highest and showed the greatest performance variability. The improvement of mixed-phase prediction remains a challenge. This study establishes a basis for integrating automated phase observations into a hydrometeorological observation network and developing probabilistic precipitation phase models.</p>
Data of resulting velocity and anisotropic models, and Moho depth of the Tanlu fault zone
<div>Our dataset includes velocity model, anisotropic model, Moho depth data, core drawing codes, and color files.</div> <div> </div> <div>1. ani_vel_model.txt </div> <div>Data of our resulting velocity and anisotropic models.</div> <div> Format: longitude, latitude, vel_value (km/s), ani_value (km/s), azimuth_anisotropy (degree),</div> <div> </div> <div>2. moho.txt </div> <div>Data of our resulting Moho depth.</div> <div> Format: longitude, latitude, moho_depth (km)</div> <div> </div> <div>3. core_code_plot_picture.sh</div> <div>The core codes for plotting velocity model, anisotropy model, and Moho depth map.</div> <div> </div> <div>3. moho.cpt</div> <div>Color files required for plotting Moho depth.</div> <div> </div> <div>4. vel.cpt</div> <div> Color files required for plotting velocity model.</div>
Tuning-less Object Naming with a Foundation Model - Data recorded during testing
<p>We implement a real-time object naming system that enables learning a set of named entities never seen. Our approach employs an existing foundation model that we consider ready to see anything before starting. It turns seen images into relatively small feature vectors that we associate with index to a gradually built vocabulary without any training of fine-tuning of the model. Our contribution is using the association mechanism known from transformers as attention. It has features that support generalization from irrelevant information for distinguishing the entities and potentially enable associating with much more than indices to vocabulary. As a result, the system can work in a one-shot manner and correctly name objects named in different contents. We also outline implementation details of the system modules integrated by a blackboard architecture. Finally, we investigate the<br>system's quality, mainly how many objects it can handle in this way.</p>
Core individual-based model simulation script and landscape data
<p>Habitat loss and isolation caused by landscape fragmentation represent a growing threat to global biodiversity. Existing theory suggests that the process will lead to a decline in metapopulation viability. However, since most metapopulation models are restricted to simple networks of discrete habitat patches, the effects of real landscape fragmentation, particularly in stochastic environments, are not well understood. To close this major gap in ecological theory, we developed a spatially explicit, individual-based model applicable to realistic landscape structures, bridging metapopulation ecology and landscape ecology. This model reproduced classical metapopulation dynamics under conventional model assumptions, but on fragmented landscapes, it uncovered general dynamics that are in stark contradiction to the prevailing views in the ecological and conservation literature. Notably, fragmentation can give rise to a series of dualities: a) positive and negative responses to environmental noise, b) relative slowdown and acceleration in density decline, and c) synchronization and desynchronization of local population dynamics. Furthermore, counter to common intuition, species that interact locally ("residents") were often more resilient to fragmentation than long-ranging "migrants". This set of findings signals a need to fundamentally reconsider our approach to ecosystem management in a noisy and fragmented world.</p>
1-km high resolution model outputs using the WRF and WRF-Hydro model Raw data from the manuscipt "Process-based Atmosphere-Hydrology-Malaria Modeling: Performance for Spatio-temporal Malaria Transmission Dynamics in Sub-Saharan Africa "
<p>Here we provide the model outputs from the numerical climate model WRF (Weather Research and Forecasting) and its hydrological coupled model WRF-Hydro for the Health and Demographic Surveillance Systems (HDSS) site regions of Nouna in Burkina Faso. Model results are used for investigating the influence of surface hydrology representation, environmental and climate-sensitive driver factors on malaria incidence.<br>The experiments use the following model configuration: 1km horizontal resolution with 200*200 grid points, WSM6 microphysics, ACM2 PBL, and RRTM & Dudhia radiation scheme. WRF uses the Noah LSM, and WRF-Hydro uses the Noah LSM with enhanced lateral hydrological description (https://ral.ucar.edu/projects/wrf_hydro/overview). These simulations were conducted in the Karlsruhe Steinbuch Centre for Computing (SCC) Horeka.</p> <p>Model outputs are provided in daily step (originally derived from the hourly output). Filename with "wrf-hydro_pr_2000-2020_d02-1km.nc" provides Precipitation,<br>n mm/day"wrf-hydro_tas_2000-2020_d02-1km.nc" provides mean temperature in Celsius, "wrf-hydro_tasmax_2000-2020_d02-1km.nc" provides maximum temperature in Celsius, "wrf-hydro_tasmin_2000-2020_d02-1km.nc" provides minmum temperature in Celsius, "wrf-hydro_dtr_2000-2020_d02-1km.nc" provides diurnal temperature ranges in Celius, "wrf-hydro_rh_2000-2020_d02-1km.nc" provides relative humudity in % and "wrf-hydro_sw_2000-2020_d02-1km.nc" provides the surface hydrology.</p>
Modelling data and model results Tox21
<p>The data sets accompany the manuscript </p> <ul> <li><a href="https://doi.org/10.1101/2023.11.15.567095" target="_blank" rel="noopener">10.1101/2023.11.15.567095</a></li> </ul> <p>The data sets rely on previous work from </p> <p>M. Lovrić, "Razvoj i primjena modela za procjenu ekotoksikoloških rizika bioaktivnih kemijskih spojeva", Disertacija, Sveučilište u Zagrebu, Prirodoslovno-matematički fakultet, Zagreb, 2021. Dostupno na: https://urn.nsk.hr/urn:nbn:hr:217:730117</p> <p>and</p> <p>Lovrić M, Malev O, Klobučar G, Kern R, Liu JJ, Lučić B. Predictive Capability of QSAR Models Based on the CompTox Zebrafish Embryo Assays: An Imbalanced Classification Problem. Molecules. 2021 Mar 15;26(6):1617. doi: 10.3390/molecules26061617</p> <p>the original data was downloaded from the Tox21 challenge https://tripod.nih.gov/tox21/challenge/data.jsp </p> <p>The files comprise of:</p> <ol> <li>tox21_desc_p194.csv - descriptor data for the prepared Tox21 data set</li> <li>tox21_fp_all.csv - fingerprint and maccs data for the prepared Tox21 data set</li> <li>tox21_target_all.csv - 12 binary Tox21 target(labels) </li> <li>standardizer_pipeline.xml - structure standardizer pipeline for ChemAxon Standardizer </li> <li>tox21_models_metadata.json - model metadata such as sklearn hyperparameters and descriptor feature lists</li> </ol> <p> </p> <p> </p>
The data used for "Exploring how differences in dust particle size distribution and complex refractive indices affect dust direct radiative fluxes using the CAS-FGOALS-SPRINTARS global climate model"
<p>These data are used for " Exploring how differences in dust particle size distribution (PSD) and complex refractive indices (CRI) affect direct radiative effect (DRE) using the CAS-FGOALS-SPRINTARS global climate model ". </p> <p>(1) AS83+OPAC: The control experiment, dust PSD is the original AS83, and the generic CRI is from OPAC. </p> <p>(2) BFT22+OPAC: Same as the control experiment, but the PSD is updated to use BFT22.</p> <p>(3) BFT22+DB: Same as the experiment BFT22+OPAC, but the generic OPAC CRI is replaced by nine regionally dependent DB CRIs.</p> <p>(4) BFT22+DB strong abs: Same as the experiment BFT22+DB, but the generic CRI consists of 10% percentile real and 90% percentile imaginary parts and no regional dependencies.</p> <p>(5) BFT22+DB weak abs: Same as the experiment BFT22+DB, but the generic CRI consists of 90% percentile real and 10% percentile imaginary parts and no regional dependencies.</p> <p>All experiments mentioned above are run for 5 years (2010-2014). The annual average simulation results are stored here.</p> <p><strong>Note:</strong> AS83 represents the dust PSD scheme from d'Almeida and Schütz. (1983). BFT22 represents the new dust PSD developed by Meng et al. (2022) based on the improved brittle fragmentation theory. OPAC: the Optical Properties for Aerosols and Clouds dataset, DB: the CRIs from Di Biagio et al. (2017, 2019).</p> <p><strong>References</strong></p> <p>d'Almeida, G. A., & Schütz, L. (1983). Number, Mass and Volume Distributions of Mineral Aerosol and Soils of the Sahara. <em>Journal of Applied Meteorology and Climatology</em>,<em> 22</em>(2), 233-243. https://doi.org/https://doi.org/10.1175/1520-0450(1983)022<0233:NMAVDO>2.0.CO;2</p> <p>Di Biagio, C., Formenti, P., Balkanski, Y., Caponi, L., Cazaunau, M., Pangui, E., et al. (2019). Complex refractive indices and single-scattering albedo of global dust aerosols in the shortwave spectrum and relationship to size and iron content. <em>Atmospheric Chemistry and Physics</em>,<em> 19</em>(24), 15503-15531. https://doi.org/10.5194/acp-19-15503-2019</p> <p>Di Biagio, C., Formenti, P., Balkanski, Y., Caponi, L., Cazaunau, M., Pangui, E., et al. (2017). Global scale variability of the mineral dust long-wave refractive index: a new dataset of in situ measurements for climate modeling and remote sensing. <em>Atmospheric Chemistry and Physics</em>,<em> 17</em>(3), 1901-1929. https://doi.org/10.5194/acp-17-1901-2017</p> <p>Meng, J., Huang, Y., Leung, D. M., Li, L., Adebiyi, A. A., Ryder, C. L., et al. (2022). Improved Parameterization for the Size Distribution of Emitted Dust Aerosols Reduces Model Underestimation of Super Coarse Dust. Geophysical Research Letters, 49(8), e2021GL097287, https://doi.org/https://doi.org/10.1029/2021GL097287</p>
Scripts and data for: Integrating different facets of diversity into food web models: how adaptation among and within functional groups shape ecosystem functioning
<p>Adaptation of communities to environmental fluctuations can emerge from different facets of biodiversity, which may impact ecosystem functioning differently. Previous work examined how ecosystem functions can be influenced by two sources of adaptive potential: sorting (i.e., changes in community composition due to fitness differences) can occur when multiple species or groups are present (richness), and trait adaptability (i.e., trait adjustments within species or functional groups) can emerge from genetic or phenotypic diversity. However, their effect is typically studied separately, and often in the context of only one trophic level. Therefore, we used a bitrophic trait-based model varying in richness and in the presence of trait adaptability at each trophic level, to investigate how sorting and trait adaptability, at one or two trophic levels, separately or jointly shape ecosystem functions. We found that the adaptive potential emerging from any facet of diversity-induced changes in trophic interactions, in turn, affects biomass distributions within and across trophic levels, dynamical behaviour, and synchrony of biomass dynamics within a trophic level. Particularly, sorting and trait adaptability could contribute to a similar degree and at a similar time to temporal changes in ecosystem functions, but their respective contribution depended on the speed of trait adaptation, the trait range between similar functional groups, and trophic interactions. We thus suggest to consider multiple facets of diversity and their corresponding sources of adaptive potential to deepen our mechanistic understanding of ecosystem functioning, especially in a context of rapid biodiversity change.</p>
Data from: Accounting for missing ticks: Use (or lack thereof) of hierarchical models in tick ecology studies
<p>Ixodid (hard) ticks play important ecosystem roles and have significant impacts on animal and human health via tick-borne diseases and physiological stress from parasitism. Tick occurrence, abundance, behavior, and key life-history traits are highly influenced by host availability, weather, microclimate, and landscape features. As such, changes in the environment can have profound impacts on ticks, their hosts, and the spread of diseases. Researchers interested in enumerating questing ticks attempt to integrate this heterogeneity by conducting replicate sampling bouts spread over the tick questing period as common field methods notoriously underestimate ticks. However, it is unclear how (or if) tick studies account for this heterogeneity in the modeling process. This step is critical as unaccounted variance in detection can lead to biased estimates of occurrence and abundance. We performed a descriptive review to evaluate the extent to which studies account for the detection process while modeling tick data. We also categorized the types of analyses that are commonly used to model tick data. We used hierarchical models (HMs) that account for imperfect detection to analyze simulated and empirical tick data, demonstrating that inference is muddled when detection probability is not accounted for in the modeling process. Our review indicates that only 5 of 412 (1%) papers explicitly accounted for imperfect detection while modeling ticks. By comparing HMs with the most common approaches used for modeling tick data (e.g., ANOVA), we show that population estimates are biased low for simulated and empirical data when using non-HMs, and that confounding occurs due to not explicitly modeling factors that influenced both detection and abundance. Our review and analysis of simulated and empirical data shows that it is important to account for our ability to detect ticks using field methods with imperfect detection. Not doing so leads to biased estimates of occurrence and abundance which could complicate our understanding of parasite-host relationships and the spread of tick-borne diseases. We highlight the resources available for learning HM approaches and applying them to analyzing tick data.</p>
Data Sources for Bottom-Up Archetype-based Modelling of Nigerian Residential Dwellings for Scenario Analysis
<p><strong>Dataset Name:</strong><br><em>Literature Data, Archetype Parameter Sheets, and Schedules for the publication, named Bottom-Up Archetype-based Modelling of Nigerian Residential Dwellings for Scenario Analysis</em>.</p> <p><strong>Description:</strong><br>This dataset includes Excel sheets containing literature sources, archetypal data, and schedules for Nigerian residential dwelling typologies.</p> <p><strong>Files:</strong><br>The following files are included in the dataset:</p> <ul> <li> Nigeria<em>_LiteratureSources.xlsx:</em> Excel sheet containing literature sources and references,</li> <li> Nigeria<em>_ArchetypeParameters.xlsx</em>: Archetype models' semantic, geometric, and technical data used in the generation of energy models,</li> <li> Nigeria<em>_Schedules.xlsx:</em> Excel sheet containing the operation schedules compiled from literature sources and reorganized by expert consensus and given in Designbuilder input format.</li> </ul> <p><strong>Usage:</strong><br>The dataset is intended for researching and analyzing the Nigerian residential buildings. The literature sources included in the Nigeria_LiteratureSources.xlsx and Nigeria_ArchetypeParameters.xlsx files can be used to verify, support, or reproduce the research findings.</p> <p><strong>License:</strong><br>The dataset is licensed under Creative Commons Attribution 4.0 International.</p> <p><strong>Citation:</strong><br>If you use this dataset in your research, please cite it as follows and contact the corresponding author:</p> <p>Chibuikem Chrysogonus Nwagwu, Sahin Akin, and Edgar G. Hertwich. 2024. “Data Sources for Bottom-Up Archetype-based Modelling of Nigerian Residential Dwellings for Scenario Analysis” https://doi.org/10.5281/zenodo.10995123</p> <p><strong>Contact:</strong><br>The archetypes' energy models (DesignBuilder or IDF files) as well as full material and energy use result sheets can be provided on request. If you have any questions or comments about the dataset, please contact <strong>chibuikem.nwagwu@sintef.no, the corresponding author.</strong></p>
Post-fire flood hazard model (PF2HazMo) version 1.0.0: Model scripts and parameterization and validation data
<p>Human development at the foot of the mountains faces sediment-laden flood hazards characterized by high-velocity, erosive flows carrying mud and debris, and when flood control infrastructure that protects communities fills with sediment, it loses capacity. The estimation and management of sediment-laden floods have proven challenging because cycles of wildfire, precipitation, and infrastructure sedimentation are still poorly understood. Efforts to model compound hazards such as post-fire floods are relatively new, and existing models do not consider the role of flood control infrastructure, such as debris retention basins and flood channels, in the development of post-fire floods. Here we present data sources and calibration methods to estimate sediment-laden flood hazards downstream of infrastructure on a catchment-by-catchment basis using the Post-Fire Flood Hazard Model (PF2HazMo), a stochastic modeling approach that utilizes continuous simulation to resolve the effects of antecedent conditions and system memory. Data sources provide parameter ranges needed for stochastic modeling, and several performance measures are considered for model calibration. With application to three catchments in Southern California, we show that PF2HazMo predicts the median of the simulated distribution of peak bulked flows within the 95% confidence interval of observed flows, with an order of magnitude range in bulked flow estimates depending on the performance measure used for calibration. Using infrastructure overtopping data from a post-fire wet season, we show that PF2HazMo accurately predicts the number of flood channel exceedances. Model applications to individual watersheds reveal whether existing infrastructure is undersized to contain present-day and future overtopping hazards based on current design standards.</p>
Data for fitting a statistical global burned area model for seamless integration into Dynamic Global Vegetation Models
<p>The dataset is a large R data.table object saved in RDS format. It contains global, monthly data spanning the period from 2002 to 2018, with a 0.5 degrees spatial resolution. The dataset is utilized to develop and validate statistical models for predicting global burnt areas resulting from wildfires.</p>
Data generated for the publication: Keeping it in the family: Using protein family templates to rescue poor AlphaFold models unliked
<p>Data and manuscript of:</p> <p>Keeping it in the family: Using protein family templates to rescue low confidence AlphaFold2 models</p> <p>Francesco Costa1, Matthias Blum1 and Alex Bateman1</p> <ol> <li>European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton. CB10 1SD. UK</li> </ol> <ul> <li>results contains the workflow results;</li> <li>AF2_seed contains results of the comparison with AF2 run with multiple seeds;</li> </ul>
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.