Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
1,273
datasets available to search
ShareScore release 0.9.0
Dataset results
1,273 results for “deep learning”
Data files for figures in "Deep learning extreme precipitation of the past, present, and under 1.5°C and 2.0°C global warming" by Bird et al. 2022
<p>The data files for figures in <em>Deep learning extreme precipitation of the past, present, and under 1.5°C and 2.0°C global warming</em> by Bird, Bodeker and Clem. The data files are provided either as self-describing netCDF files, or .csv files with column descriptors.</p>
Phase Object Reconstruction for 4D-STEM using Deep Learning, (4D-STEM Training Data)
<p><strong>Overview </strong></p> <p>This repository contains 742,688 samples of simulated Convergent Beam Electron Diffraction patterns (CBEDs); the training data for the paper <a href="https://arxiv.org/abs/2202.12611">"Phase Object Reconstruction for 4D-STEM using Deep Learning"</a>. The folder contains multiple hdf5 datasets. Each dataset has a corresponding Excel-sheet containing detailed information and simulation parameters for every datapoint, as well as a summary-report containing the parameter distributions, hdf5-infos and random number generator settings. This makes every dataset reproducible, using the simulation codes provided in <a href="https://github.com/ThFriedrich/ap_data_generation">https://github.com/ThFriedrich/ap_data_generation</a>.</p> <p><strong>Technical details</strong></p> <p>Every Datapoint consists of a 3x3 set of adjacent Convergent Beam Electron Diffraction pattern (CBEDs), the coherent exit wave phase and amplitude in real and reciprocal space, and the probe functions phase and amplitude in real space. All patterns are 64x64 pixel in 16 bit unsigned integer data format.</p> <p>Every hdf5 file has the following structure:</p> <table> <tbody> <tr> <td>Attributes</td> <td>'Seed': 6108236<br> 'State': 251786606 ...<br> 'Type': 'twister'<br> 'arch': 'glnxa64'<br> 'gpu': 'NVIDIA GeForce RTX 3080'<br> 'matlab_ver': '2021a'</td> </tr> <tr> <td>Dataset 'features'</td> <td> <p>Size: 64x64x9x5000<br> Datatype: H5T_STD_U16LE (uint16)</p> </td> </tr> <tr> <td>Dataset 'labels_k'</td> <td> <p>Size: 64x64x2x5000<br> Datatype: H5T_STD_U16LE (uint16)</p> </td> </tr> <tr> <td>Dataset 'labels_r'</td> <td> <p>Size: 64x64x2x5000<br> Datatype: H5T_STD_U16LE (uint16)</p> </td> </tr> <tr> <td>Dataset 'probe_r'</td> <td> <p>Size: 64x64x2x5000<br> Datatype: H5T_STD_U16LE (uint16)</p> </td> </tr> <tr> <td>Dataset 'meta'</td> <td> <p>Size: 19x5000<br> Datatype: H5T_IEEE_F32LE (single)</p> </td> </tr> </tbody> </table> <p>The data was written to hdf5 in matlab. When reading from these files consider possibly different storage conventions (Row major vs. column major format). Data may need to be transposed accordingly. The integer arrays were scaled to use the full range of the uint16 datatype. The scaling values are stored under "meta". To restore the original values in floating point numbers, convert the arrays like this:</p> <p>Matlab:</p> <pre><code>hdf_file = ['db_h5_b_5_Training.h5']; n = 128; % load `n` k-space exit waves x = single(h5read(hdf_file, '/labels_k', [1,1,1,1], [64,64,2,n])); % `meta` contains parameters and scaling factors for a given datapoint in following order: [E_0(keV), cond_lens_outer_aper_ang(mrad), collection angle(rA), step_size(A), scale_cbed_1 ... scale_cbed_9, scale_phase_k, scale_amp_k, scale_phase_r, scale_amp_r, scale_probe_phase_r, scale_probe_amp_r] s = h5read(hdf_file, '/meta', [14,1], [2,n]); amplitude = zeros(64,64,n); phase = zeros(64,64,n); for ix = 1:n phase(:,:,n) = (x(:,:,1,n)*s(1,ix) / 65536) - pi; amplitude(:,:,n) = (x(:,:,2,n)*s(2,ix)) / 65536; end % The 9 CBEDs correspond to a 3x3 kernel of patterns. The order in [x,y] is: %[[3, 6, 9]; % [2, 5, 8]; % [1, 4, 7]] </code></pre>
Training Deep Learning Models to Estimate Permeability using Geophysical Datasets
<p>This folder contains the dataset for training deep learning models to estimate permeability using hydro-geophysics simulations</p>
Explainable AI for unveiling deep learning pollen classification model - Pollen dataset
<p>Dataset consists automatic particle detector Rapid-E measurements of pollen grains from 12 classes: Acer, Alnus, Alopecurus, Carex, Cupressus, Dactylis, Juglans, Morus, Platanus, Populus, Salix and Ulmus. Data are available i json format.</p> <p>Dataset also contains preprocessed data packed into csv files of 3 modalities: spectrum, lifetime, scattering and additional features from scattering and lifetime data are also available. These are ready to be used with machine learning models. Labels 0, 1, 2, ... 11 correspond to alphabetical order of examined pollen classes Acer, Alnus, Alopecurus ... Ulmus.</p> <p> </p>
Data for "Accelerating equilibrium spin-glass simulations using quantum annealers via generative deep learning"
<p>Datasets and material for replicating plots and results from the paper "Accelerating equilibrium spin-glass simulations using quantum annealers via generative deep learning" <a href="https://scipost.org/SciPostPhys.15.1.018">SciPost Phys. 15, 018 (2023)</a>.</p> <p>You will find three data files and a ReadMe.txt:</p> <ul> <li><strong>couplings.tar.gz </strong>contains the random couplings of the system's Hamiltonian <span class="math-tex">\(H = \sum_{\langle ij \rangle}{J_{ij} \sigma_i \sigma_j}\)</span>;</li> <li><strong>datasets.tar.gz </strong>contains all the datasets generated by the <a href="https://www.dwavesys.com/">D-Wave</a> quantum computer. They are already split into train and validation and divided for the type of model and annealing time;</li> <li><strong>data_for_fig.tar.gz </strong>contains files for reproducing the plots of the article, almost all of them are saved in double format, .csv and .npy or .npz.</li> </ul> <p>We encourage you to download the GitHub code linked below to open all the listed data.</p> <p>All the data are zip, so to unzip them using</p> <pre><code class="language-bash">tar -xvf datasets.tar.gz</code></pre> <p>The code for training the Neural Networks and reproducing all the results is open access at <a href="https://doi.org/10.5281/zenodo.7118502">zenodo.7118502</a>.</p>
Histopathological Evaluation of Abdominal Aortic Aneurysms with Deep Learning: The HistAAA Dataset
<p>This dataset accompanies our manuscript "Histopathological Evaluation of Abdominal Aortic Aneurysms with Deep Learning" (<a title="Histopathological evaluation of abdominal aortic aneurysms with deep learning" href="https://www.medrxiv.org/content/10.1101/2024.04.23.24306178v1">1</a>) and comprises feature vectors extracted from digital whole-slide images (WSI) of abdominal aortic aneurysm (AAA) wall samples from 369 patients treated at three European centers and corresponding expert pathologist annotations. This dataset is intended to be used for computational modelling tasks including automated prediction of pathology-related variables such as inflammation, degradation of elastic fibers, and fibrosis (<a title="Histopathological evaluation of abdominal aortic aneurysms with deep learning" href="https://www.medrxiv.org/content/10.1101/2024.04.23.24306178v1">1</a>). </p> <p>Code for preprocessing is available at <a href="https://github.com/KatherLab/STAMP">https://github.com/KatherLab/STAMP</a>. Code for modeling is available at <a href="https://github.com/KatherLab/marugoto">https://github.com/KatherLab/marugoto</a>. Code for spatial heatmaps and top-attention tiles is available at <a href="https://github.com/KatherLab/highres-WSI-heatmaps/tree/AAA_heatmaps">https://github.com/KatherLab/highres-WSI-heatmaps/tree/AAA_heatmaps</a>. </p> <h3>Patient Cohort</h3> <p>Data from a total of 369 patients (84.6% male, mean age 69.1 ± 8.0 years, average maximum diameter 62.9 ± 15.7 mm) undergoing open AAA repair at the Technical University Munich (TUM, n = 287), the University Hospital Würzburg (UHW, n = 36) and the Medical University Vienna (MUV, n = 46), between 2005 and 2019, are included in this dataset. </p> <p>To generate annotations, aneurysm samples from the left anterior wall were independently analyzed by three pathologists as described previously (<a title="Abdominal aortic aneurysms harbor different histomorphology not associated with classic risk factors &ndash; the HistAAA study" href="https://www.medrxiv.org/content/10.1101/2024.04.16.24305904v1">2</a>). In brief, the following histopathological parameters were evaluated: Grade of inflammation in tunica media [none, minor, intermediate, major], grade of inflammation in adventitia [none, minor, intermediate, major], type of inflammation in adventitia and tunica media [none, acute, chronic], Histological Inflammation Scale of Aneurysms (HISA) grade (<a title="Inflammation of the abdominal aortic aneurysm wall" href="https://www.sciencedirect.com/science/article/abs/pii/S0950821X05801185">3</a>) [0, 1, 2, 3, 4], angiogenesis in tunica media [present, not present], calcification in tunica media [present, not present], grade of fibrosis in adventitia [minor, intermediate, major], remaining elastic fibers in tunica media [< 25%, > 25%]. In case of disagreement, consensus was reached through discussion. Hematoxylin and Eosin (HE)- and Elastica van Gieson (EvG)-stained slides were digitized using an Aperio AT2 (Leica, Wetzlar, Germany) slide scanner. Patient sex and smoking history were gathered as binary clinical parameters. </p> <h3>Preprocessing and Feature Extraction</h3> <p>The STAMP protocol was utilized to process the WSIs (<a title="From Whole-slide Image to Biomarker Prediction: A Protocol for End-to-End Deep Learning in Computational Pathology" href="https://arxiv.org/abs/2312.10944">4</a>). In brief, WSI were preprocessed by tessellation into 224 x 224 pixel patches at a magnification of 256 µm per pixel, followed by computational background rejection, and color normalization of HE-stained slides. EvG-stained slides were not color-normalized as no color normalization protocols exist for this staining. Subsequently, features were extracted using CTranspath (<a title="Transformer-based unsupervised contrastive learning for histopathological image classification" href="https://www.sciencedirect.com/science/article/abs/pii/S1361841522002043">5</a>), a pre-trained histology image encoder. </p> <p> </p> <h3>References</h3> <p>1. Kolbinger, F. R. et al. Histopathological Evaluation of Abdominal Aortic Aneurysms with Deep Learning. medRxiv 2024.04.23.24306178 (2024) doi:10.1101/2024.04.23.24306178. </p> <p>2. Nackenhorst, M. C. et al. Abdominal aortic aneurysms harbor different histomorphology not associated with classic risk factors – the HistAAA study. medRxiv 2024.04.16.24305904 (2024) doi:10.1101/2024.04.16.24305904. </p> <p>3. Rijbroek, A., Moll, F. L., von Dijk, H. A., Meijer, R. & Jansen, J. W. Inflammation of the abdominal aortic aneurysm wall. Eur. J. Vasc. Surg. 8, 41–46 (1994).</p> <p>4. El Nahhas, O. S. M. et al. From Whole-slide Image to Biomarker Prediction: A Protocol for End-to-End Deep Learning in Computational Pathology. arXiv [cs.CV] (2023).</p> <p>5. Wang, X. et al. Transformer-based unsupervised contrastive learning for histopathological image classification. Med. Image Anal. 81, 102559 (2022).</p>
Rafael et al., 2018: Deep Learning-Based Culture-Free Bacteria Detection in Urine Using Large-Volume Microscopy (Dataset)
<p>Dataset containing 1um polystyrene beads, urine samples, urine samples mixed with ecoli and homogenous ecoli. Dataset is the post-processing version of the images to remove static background. Original model was trained on the post-processed images exclusiviely.</p>
[Data] Qualify-As-You-Go: Sensor Fusion of Optical and Acoustic Signatures with Contrastive Deep Learning for Multi-Material Composition Monitoring in Laser Powder Bed Fusion Process
<p><br>Growing demand for multi-material Laser Powder Bed Fusion (LPBF) faces process control and quality monitoring challenges, particularly in ensuring precise material composition. This study explores optical and acoustic emission signals during LPBF processes with multiple materials, addressing challenges in process control and ensuring accurate material composition. Experimental data from processing five powder compositions were collected using a custombuilt monitoring system in a commercial LPBF machine. The research categorised signals from LPBF processing various compositions, enhancing prediction accuracy by combining optical with acoustic data and training convolutional neural networks using contrastive learning. Latent spaces of trained models using two contrastive loss functions, clustered acoustic and optical<br>emissions based on similarities, aligning with five compositions. Contrastive learning and sensor fusion were found to be essential for monitoring LPBF processes involving multiple materials. This research advances the understanding of multi-material LPBF, highlighting sensor fusion strategies’ potential for improving quality control in additive manufacturing. Data set for this work is hosted here</p>
Three-Dimensional Characterization of Deformation-induced Damage in Dual Phase Steel using Deep Learning
<p>High performance sheet metals with a multi-phase microstructure suffer from deformation induced damage formation during forming in the constituent phases but importantly also where these intersect. To capture damage in terms of the physical processes in three dimensions (3D) and its stochastic nature during deformation, two challenges remain to be tackled: First, bridging high resolution analysis towards large scales to consider statistical data and, second, characterising in 3D with a resolution appropriate for sub-micron sized voids at a large scale. Here, we present how this can be achieved using panoramic scanning electron microscopy (SEM), metallographic serial sectioning, and deep-learning assisted automatic image analysis. This brings together the 3D evolution of active damage mechanisms with volumetric and environmental information for thousands of individual damage sites. We also assess potential surface preparation artefacts in 2D analyses. Overall, we find that for the material considered here, a dual phase (DP800) steel, martensite cracking is the dominant but not sole origin of deformation induced damage and that for a quantitative comparison of damage density, metallographic preparation can induce additional surface damage density far exceeding what is commonly induced between uniaxial straining steps.</p> <p>https://doi.org/10.1016/j.matdes.2023.112108</p>
Dataset - DeepWealth: A Generalizable Open-Source Deep Learning Framework using Satellite Images for Well-Being Estimation
<p>This dataset encapsulates the Checkpoints obtained during the training process of the Deep Learning model, which can be used for new estimations.</p> <p>The aim of the DeepWealth package is to provide a generalizable Deep Learning framework for the use of remote sensing in poverty estimation. The combination of Deep Learning and Earth Observation data is increasingly being used to estimate socioeconomic conditions at regional and global scales. The proposed framework aligns with the Sustainable Development Goal SDG1 of ending poverty. The framework provides open-source data, code, and training models (checkpoints) for reproducibility and replicability.</p> <ul> <li>The source code can be found in <a href="https://github.com/PARSECworld/DeepWealth" target="_blank" rel="noopener">https://github.com/PARSECworld/DeepWealth</a></li> <li>The metadata from source code can be found in <a href="https://github.com/PARSECworld/DeepWealth/blob/main/metadata.pdf" target="_blank" rel="noopener">https://github.com/PARSECworld/DeepWealth/blob/main/metadata.pdf</a></li> <li>The paper describing the development of this framework can be found at: Ben Abbes, A., Machicao, J., Corrêa, P. L. P., Specht, A., Devillers, R., Ometto, J. P., Kondo, Y., & Mouillot, D. (2024). DeepWealth: A generalizable open-source deep learning framework using satellite images for well-being estimation. <em>SoftwareX</em>, 27, 101785. <a href="https://doi.org/10.1016/j.softx.2024.101785">https://doi.org/10.1016/j.softx.2024.101785</a> </li> </ul>
Models and Datasets for "Extracting Paleoweather from Paleoclimate: A Deep Learning Reconstruction of Northern Hemisphere Summertime Atmospheric Blocking over the Last Millennium"
<p><strong>Associated publication:</strong> <em>Karamperidou, C., Extracting Paleoweather from Paleoclimate: A Deep Learning Reconstruction of Northern Hemisphere Summertime Atmospheric Blocking over the Last Millennium, Nature Communications Earth & Environment, (2024)</em></p> <p> </p> <p><strong>This repository contains:</strong></p> <ul> <li>the architecture and weights of PaleoBlockNet v1.0</li> <li>the following ensemble DL reconstructions of JJA frequency of blocked days inferred by PaleoBlockNet: <ol> <li>the 10-member NTREND-based DL reconstruction; uses as input the NTREND DA N.Hemisphere MJJA surface temperature anomaly by King et al. (2021)</li> <li>the 100-member PHYDA-based DL reconstruction; uses as input the PHYDA JJA surface temperature anomaly by Steiger et al. (2018)</li> <li>the 12-member LME-based DL reconstruction; uses as input the CESM-LME surface temperature anomaly; this is a sensitivity experiment (see publication for details).</li> </ol> </li> <li>Integrated Gradients that assign importance to the input features for PaleoblockNet's blocking inferences </li> <li>train-validate-test samples to use with sample scripts from the Gituhub repo github/ckaramp-research/paleoblocknet</li> </ul> <p> </p> <p><strong>If you use this dataset, please cite the associated publication and the present repository.</strong></p> <p>To <strong>interactively explore</strong> the datasets, a web interface has been developed and can be accessed at <a href="https://www2.hawaii.edu/~ckaramp/paleoblocknet">https://www2.hawaii.edu/~ckaramp/paleoblocknet</a></p> <p>Contact the author Christina Karamperidou (<a title="Karamperidou Research Group" href="https://www2.hawaii.edu/~ckaramp" target="_blank" rel="noopener">https://www2.hawaii.edu/~ckaramp</a>) for more information about the details of these datasets.</p>
Project files provided as supporting information to the manuscript "A deep learning approach to the structural analysis of proteins"
<p><strong>README file to the project files provided as supporting information to the manuscript “A deep learning approach to the structural analysis of proteins”</strong></p> <p>Dec. 30, 2018</p> <p>Authors: Marco Giulini and Raffaello Potestio</p> <p>==================================</p> <p>The dataset contains the following files:</p> <p> </p> <p>- datasets.zip: archive containing five .csv files, namely:</p> <p> - decoys_cm.csv : all the data for 10728 protein decoys, training set</p> <p> - evaluation_cm.csv : all data for 146 proteins in the evaluation set</p> <p> - random_CG.csv : 1200 Coulomb matrices. 100 CG models for each protein with 120 amino acids</p> <p> - 1e5g_centered_sphere.csv : 100 CG models in which the central atoms in 1e5g are not removed</p> <p> - 1e5g_random_sphere.csv : 10 CG models for 10 different (random) locations for the sphere that includes atoms that have to be retained. 100 CG models in total</p> <p> </p> <p>- decoys_labels.lab containing the labels associated to the 10728 decoys present in the training set</p> <p>- evaluation_labels.lab containing the labels associated to the 146 pdb files in the evaluation set</p> <p>- random_CG_labels.lab containing the labels associated to the 6 proteins with 120 amino acids</p> <p>- network_development_training: a python script that performs cross validation and full training of the model</p> <p>- saved_networks.zip FOLDER containing 10 networks: the architecture is included in .json files while weight parameters are inside .hs files</p> <p> </p> <p>- pdb_files.zip FOLDER containing the PDB files that have been employed in the project, namely:</p> <p> - pdb_files_len100 : pdb files with 100 amino acids</p> <p> - pdb_files_len101-110 : pdb files with a number of amino acids between 101 and 110</p> <p> - decoys : decoys of length 100 extracted from the above folder: name syntax == PDBNAME_decoy_STARTRES_ENDRES.pdb</p> <p> EXAMPLE 6gsp.pdb will give rise to 6gsp_decoy_0_100.pdb , 6gsp_decoy_1_101.pdb , 6gsp_decoy_2_102.pdb , 6gsp_decoy_3_103.pdb , 6gsp_decoy_4_104.pdb</p> <p> - pdb_files_len100 : 6 pdb files with 120 amino acids</p> <p> </p>
DeepPredSpeech: computational models of predictive speech coding based on deep learning
<p>This dataset contains all data, source code, pre-trained computational predictive models and experimental results related to: </p> <p>Hueber T., Tatulli E., Girin L., Schwatz, J-L "How predictive can be predictions in the neurocognitive processing of auditory and audiovisual speech? A deep learning study." (<a href="https://doi.org/10.1101/471581">biorXiv preprint https://doi.org/10.1101/471581</a>). </p> <ul> <li>Raw data are extracted from the publicly available database NTCD-TIMIT (10.5281/zenodo.260228). <ul> <li>Audio recordings are available in the audio_clean/ directory</li> <li>Post-processed lip image sequences are available in the lips_roi/ directory (67x67 pixels, 8bits, obtained by lossless inverse DCT-2D transform from the DCT feature available in the original repository of NTCD-TIMIT)</li> <li>Phonetic segmentation (extracted from NTCD-TIMIT original zenodo repository) is available in the HTK MLF file volunteer_labelfiles.mlf</li> </ul> </li> <li>Audio features (MFCC-spectrogram and log-spectrogram) are available in the mfcc_16k/ and fft_16k/ directories. </li> <li>Models (audio-only, video-only and audiovisual, based on deep feed-forward neural networks and/or convolutional neural network, in .h5 format, trained with Keras 2.0 toolkit) and data normalization parameters (in .dat scikit-learn format) are available in models_mfcc/ and models_logspectro/ directories</li> <li>Predicted and target (ground truth) MFCC-spectro (resp. log-spectro) for the test databases (1909 sentences), and for the different values of <span class="math-tex">\(\tau_p\)</span> or <span class="math-tex">\(\tau_f\)</span> are available in pred_testdb_mfccspectro/ (resp. pred_testdb_logspectro/) directory</li> </ul> <p>Source code for extracting audio features, training and evaluating the models is available on GitHub https://github.com/thueber/DeepPredSpeech/</p> <p>All directories have been zipped before upload.</p> <p>Feel free to contact me for more details.</p> <p>Thomas Hueber, Ph. D., CNRS research fellow, GIPSA-lab, Grenoble, France, thomas.hueber@gipsa-lab.fr </p>
Data supporting 'Ice loss in the European Alps until 2050 using a fully assimilated, deep-learning-aided 3D ice-flow model'
<p>The dataset supporting our publication '<strong>Ice loss in the European Alps until 2050 using a fully assimilated, deep-learning-aided 3D ice-flow model</strong>' in <em>Geophysical Research Letters.</em></p> <p>The main .zip archive contains a set of NetCDF files detailing:</p> <ul> <li>Initial optimised glacier states (geology-optimized...)</li> <li>Simulation results (Prog20...)</li> </ul> <p>Initial states and results are given by cluster (see Figure 1 in the paper), as shown in all filenames (C1 through to C12). Prognostic simulation filenames additionally distinguish between runs between 1999 and 2019 (Prog2020) and between 2020 and 2050 (Prog2050). 'NV'/'NoVel' and 'NT'/'NoThk' refer to simulations using the partial optimisation (optimisation without including velocity/thickness observations) as detailed in the paper. 'AV' at the end of the filename denotes the integrated area/volume results file, as opposed to the 2D raster results file. A 'V' before the cluster designation shows that the simulation used the variable SMB as opposed to the fixed SMB (see the paper for details). 'ID' before the cluster designation shows that the simulation was using extrapolated SMB based on the trend in SMB since 2000, instead of assuming the continuation of the current SMB. 'ID' on its own denotes linear extrapolation and 'IDQ' denotes quadratic extrapolation (not used in the published paper). 'SMBF' in the filename shows that the simulation used the SMB-elevation feedback.</p> <p>The additional .zip archive contains the code of IGM v1.0 used to produce the model results. For details on installing and using IGM, please see the Github page at <a href="https://github.com/jouvetg/igm.The">https://github.com/jouvetg/igm</a>.</p> <p>A further .zip archive (in version 3 - Sims2010-2022.zip) contains the simulations based on linear extrapolation of the observed trend in SMB between 2010 and 2022, following the same nomenclature as in the principal archive (see above).</p> <p>Version 4 contains an additional mosaicked DEM of the results for the whole Alps with the ice removed to give the complete basal topography (kindly processed by T. Léger at UNIL) using the Japan Aerospace Exploration Agency (2021) ALOS World 3D 30 meter DEM. V3.2, Jan 2021. Distributed by OpenTopography. <a title="https://doi.org/10.5069/G94M92HB" href="https://doi.org/10.5069/G94M92HB" target="_blank" rel="noreferrer noopener">https://doi.org/10.5069/G94M92HB</a>. Accessed: 2024-09-09.</p>
Dataset related to the Journal Article 'A deep learning method for the prediction of ship fuel consumption in real operational conditions'
<p>This dataset contains the data used to plot the graphs and create tables corresponding to the figure/table number in the published version of the paper.<br>Paper DOI:https://doi.org/10.1016/j.engappai.2023.107425</p> <p> </p>
Advancing Vanadium Redox Flow Battery Analysis: A Deep Learning Framework for High-Throughput 3D Visualization and Bubble Quantification via Synchrotron X-ray Tomography
<p>Dataset and model of UTILE-Redox - Deep Learning based Tool for Autonomous 3D Bubble Analysis of Vanadium Flow Batteries from Synchrotron X-ray Imaging. This project focuses on the deep learning-based automatic analysis of Vanadium Redox Flow Batteries (VRFB) Synchrotron X-ray tomographies. This repository contains the Python implementation of the UTILE-Redox software for automatic volume analysis, feature extraction, and visualization of the results.</p>
First discovery and confirmation of PN candidates found from AI and deep learning techniques applied to VPHAS+ survey data
<div> <div> <div> <div> <div> <div> <p>Appendices: VPHAS+ detected PNG images labelled by red boxes, SHS Hα-Rband quotient images, VPHAS+ Hα-Rband quotient images, SAAO spectra with spectral lines labelled.</p> </div> </div> </div> <p>Table: Parameters of the observed PN candidates and any associated nebulosity or outflows.</p> <p>Reduced spectra.</p> </div> </div> </div>
Deep Learning Reach-level Estimates of Mean River Depth at the Conterminous United States Spatial Scale
<p>Abstract: Estimates of riverine channel geometry play a vital role in the physical representation of stream networks in models used to predict flood and drought conditions, manage water resources, and increase our knowledge of fluvial conditions under a changing climate. A well established body of literature exists that explains the relationship between channel geometry parameters width, depth, and velocity to instantaneous river discharge using a log-log linear power-law regression. In this study, a state-of-the-art deep learning regression model is presented and compared against the power-law method to evaluate their ability to estimate cross-sectional mean river depth. Results reveal three key findings, the neural network: (1) decreases RMSE by 22% verse a CONUS scale power-law equation, (2) reduces prediction variance across Strahler stream orders, and (3) generally outperforms regional power-law equations with an average decrease in RMSE of 8.7% Lastly, a reach-level CONUS dataset of estimated mean river depth is delivered.</p> <p> </p> <p>The deep learning model was trained using the following features:</p> <ul> <li>AI - Mean aridity index of unit catchment - Trabucco and Zomer, 2019</li> <li>area - Upstream drainage area (km2) - P. Lin et al., 2020</li> <li>CLY - Mean clay content (mass percentage, %) of unit catchment - Hengl et al., 2017</li> <li>DOR - Stream segment degree of dam regulation (Scale 0. – 100.) - Grill et al., 2019</li> <li>Elev - Stream segment mean elevation - P. Lin et al., 2020</li> <li>K - Mean bedrock permeability of unit catchment surrounding stream segment - Huscroft et al., 2018</li> <li>LAI - Mean leaf area index of unit catchment - Zhu et al., 2013</li> <li>order - Strahler-Horton stream order - P. Lin et al., 2020</li> <li>P - Mean bedrock porosity of unit catchment - Huscroft et al., 2018</li> <li>QMEAN - Stream segment mean annual discharge (m3/s) - P. Lin et al., 2019</li> <li>Sin - Stream segment sinuosity - P. Lin et al., 2020</li> <li>Slp - Stream segment mean longitudinal slope - P. Lin et al., 2020</li> <li>SLT - Mean silt content (mass percentage, %) of unit catchment - Hengl et al., 2017</li> <li>SND - Mean sand content (mass percentage, %) of unit catchment - Hengl et al., 2017</li> <li>stream_wdth_va - Measured stream cross-sectional width (m) - Canova et al., 2016</li> <li>Urb - Mean urban fraction of unit catchment - Liu et al., 2018</li> </ul> <p>The deep learning model was trained using the following label:</p> <ul> <li>mean_depth_va - Measured stream mean depth (m) - Canova et al., 2016</li> </ul> <p>Predictions of mean depth were made by replacing stream_wdth_va from Canova et al., (2016) with bankfull width estimates (width_m) from P. Lin et al., (2020). Missing records from the P. Lin et al., (2020) dataset were excluded when making predictions, thus there are missing reaches in the dataset.</p>
DL-RMD: A geophysically constrained electromagnetic resistivity model database for deep learning applications (Dataset)
<p>Deep learning algorithms have shown incredible potential in many applications. The success of these data-hungry methods is largely associated with the availability of large-scale data sets, as millions of observations are often required to achieve acceptable performance levels. Recently, there has been an increased interest in applying deep learning methods to geophysical applications where electromagnetic methods are used to map the subsurface geology by observing variations in the electrical resistivity of the subsurface materials. To date, there are no standardized datasets for electromagnetic methods, which hinders the progress, evaluation, benchmarking, and evolution of deep learning algorithms due to data inconsistency. Therefore, we present a large-scale electrical resistivity model database of a wide variety of geologically plausible and geophysically resolvable subsurface structures for the commonly deployed ground-based and airborne electromagnetic systems. The presented database can potentially be used to build surrogate models of well-known processes and aid in labour intensive tasks. The geophysically constrained property of this database will not only achieve enhanced performance and improved generalization but, more importantly, it will incorporate consistency and credibility in deep learning models. We urge the geophysical community interested in deep learning for electromagnetic methods to utilize the presented database.</p>
Volumetric imaging of cellular dynamics with deep learning enhanced bioluminescence microscopy
<p>The low photon emission of known luciferases, currently limit their widespread use as contrast agents in live cell microscopy because they demand long exposure times that are prohibitive for imaging fast biological dynamics. To increase the versatility of bioluminescence microscopy as an alternative for fluorescence microscopy, we present an improved low-light microscope in combination with deep learning methods to image extremely photon-starved samples enabling subsecond exposures for timelapse and volumetric imaging. Here, we leverage a versatile training data set for deep learning based bioluminescence microscopy including paired images of noisy and ground thruth fluorescence data of body wall muscle labeled <em>Caenorhabditis elegans</em> animals. These data include light-field images and their ground truth reconstructions for training a CNN for fast light fiel deconvolution.</p>
ScienceDex guides
Understand access before you commit
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.