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Dataset results
76 results for “test network”
Test dataset for "Rapid estimation of cortical neuron activation thresholds by transcranial magnetic stimulation using convolutional neural networks"
<p>Data corresponding to test dataset used in Aberra AS, Lopez A, Grill WM, Peterchev AV. (2022). "Rapid estimation of cortical neuron activation thresholds by transcranial magnetic stimulation using convolutional neural networks". bioRxiv. Dataset includes:</p> <ul> <li><em>simnibs/ -</em> SimNIBS mesh and E-field solution file used in test dataset (posterior-anterior TMS of M1 in <em>ernie</em> example mesh, meshed with mri2mesh pipeline)</li> <li><em>layer_data/ - </em>surface meshes used for placing and orienting neuron models and corresponding sampling grids for CNNs</li> <li><em>nrn_sim_data/ - </em>Thresholds from NEURON simulations for all 25 model neurons included in the study, each at 4,999-5,000 positions and 12 azimuthal orientations ("ground truth" for CNN) </li> <li><em>cell_data/</em> - Coordinates and morphology information for all model neurons</li> <li><em>weights/</em> - Trained 3D convolutional neural networks for estimating neuron model-specific TMS thresholds given input E-field distributions on a 3D grid (see code/manuscript for dimensions)</li> <li><em>est_data/ </em>- Output of trained CNNs on all E-field data for test dataset <em> </em></li> </ul> <p> </p>
Example testing images for PFU detection neural network
<p>This is the example testing images used for the paper of "Rapid and stain-free quantification of viral plaque via lens-free holography and deep learning". The data has been compressed into eight zip files from .001 to .008. To access the data, please follow these steps: 1) Download all eight zipped files. 2) Once the download is complete, click on any one of the zipped files to start the extraction process. 3) The extracted files will automatically be organized into one folder.</p> <p>After extraction, there are three subfolders inside it: 1) Network input: it contained 4 holographic phase images (.mat files) at 12h, 13h, 14h and 15h of incubation for an example postive well and an example negative well. 2) Network output: It contains the network output image (PFU probability map) fot the example postive well and the example negative well. 3) Detection result: It contains the final binary detection result images after thresholding fot the example postive well and the example negative well.</p>
COVID-19 Self-Testing Through Rapid Network Distribution
ClinicalTrials.gov study NCT04797858. IPD Sharing: NO. Countries: 1. Publications: 8.
Data from: Does biological intimacy shape ecological network structure? A test using a brood pollination mutualism on continental and oceanic islands
Open the record for dataset details and reuse information.
Data from: Testing the equivalency of human “predators” and deep neural networks in the detection of cryptic moths
Open the record for dataset details and reuse information.
Four-area test network
<p>Test network consisting of four areas used in reliability studies at SINTEF Energy Research, see README.md for details.</p>
Fortran/Python Interface in ARP-GEM1: Online Test of Neural Network Deep Convection
<p>Manuscript under review in AIES. Supporting Code and Dataset. </p> <p><strong>Abstract.</strong></p> <p>In this study, we present the integration of a neural network-based parameterization into the global atmospheric model ARP-GEM1, leveraging the Python interface of the OASIS coupler. This approach facilitates the exchange of fields between the Fortran-based ARP-GEM1 model and a Python component responsible for neural network inference. As a proof-of-concept experiment, we trained a neural network to emulate the deep convection parameterization of ARP-GEM1. Using the flexible Fortran/Python interface, we have successfully replaced ARP-GEM1's deep convection scheme with a neural network emulator. To assess the performance of the neural network deep convection scheme, we have run a 5-years ARP-GEM1 simulation where the neural network replaced ARP-GEM1's deep convection parameterization. The evaluation of averaged fields showed good agreement with output from an ARP-GEM1 simulation using the physics-based deep convection scheme. The Python component was deployed on a separate partition from the general circulation model, using GPUs to increase inference speed of the neural network.</p>
A Probabilistic Framework for Mutation Testing in Deep Neural Networks - Models archive Part 2
<p>Models used as part of the paper "A Probabilistic Framework for Mutation Testing in Deep Neural<br> Networks ?" submitted to the journal Information and Software Technology</p> <p>Replication package using the data is available at https://github.com/FlowSs/PM</p>
A Probabilistic Framework for Mutation Testing in Deep Neural Networks - Models archive Part 3
<p>Models used as part of the paper "A Probabilistic Framework for Mutation Testing in Deep Neural<br> Networks ?" submitted to the journal Information and Software Technology</p> <p>Replication package using the data is available at https://github.com/FlowSs/PMT</p>
A Probabilistic Framework for Mutation Testing in Deep Neural Networks - Models archive Part 1
<p>Models used as part of the paper "A Probabilistic Framework for Mutation Testing in Deep Neural<br> Networks ?" submitted to the journal Information and Software Technology</p> <p>Replication package using the data is available at https://github.com/FlowSs/PMT</p>
Inference and Test Generation Using Program Invariants in Chemical Reaction Networks Artifacts
<p>The artifacts for Inference and Test Generation Using Program Invariants in Chemical Reaction Networks, published at ICSE 2022.</p> <p>The pdf of the paper can be accessed at <a href="https://ieeexplore.ieee.org/document/9794130">IEEEXplore</a>.</p> <p><strong>To cite this work, please use the citation below:</strong></p> <pre>@INPROCEEDINGS{GertenICSE22, author={Gerten, Michael C. and Marsh, Alexis L. and Lathrop, James I. and Cohen, Myra B. and Miner, Andrew S. and Klinge, Titus H.}, booktitle={2022 IEEE/ACM 44th International Conference on Software Engineering (ICSE)}, title={Inference and Test Generation Using Program Invariants in Chemical Reaction Networks}, month={May}, year={2022}, pages={1193-1205}, doi={10.1145/3510003.3510176}}</pre> <p>The artifacts are also available on <a href="https://github.com/LavaOps/ICSE-2022-Artifacts">GitHub</a>.</p> <p><strong>This is an updated version of the ChemFlow tool. The update addressed an overflow error when computing gaussian elimination that could result in incorrect invariants with certain model inputs. After verification, all models in this work were not affected by this bug and have the same set of invariants generated by both versions. We have updated the docker file to use the new code as well.</strong></p>
Fig. 5 in Pretrained Convolutional Neural Networks Perform Well in a Challenging Test Case: Identification of Plant Bugs (Hemiptera: Miridae) Using a Small Number of Training Images
Fig. 5. Visualization of a feature with high importance and a feature with low importance from a configuration B. The importance of these features for the identification accuracy was determined using permutation tests (see the methods). For each taxon or group (rows) several randomly selected specimens (columns) are shown. For the two selected Global Average Pooling layer features, the corresponding features of the preceding (Max Pooling) layer are visualized as those show specific image parts that had higher activations.Yellow represents the maximal activation strength; dark blue represents the minimal activation strength.
Fig. 2 in Pretrained Convolutional Neural Networks Perform Well in a Challenging Test Case: Identification of Plant Bugs (Hemiptera: Miridae) Using a Small Number of Training Images
Fig. 2. Schematic representation of the networks used. On top are the convolutional layers of VGG16, grouped into five blocks. Output of each Max Pooling layer is fed into Global Average Pooling layer. Numbers near each block name indicate number of features in the Global Average Pooling layer. Height of layers roughly corresponds to resolution (except for Global Average Pooling layer), while width roughly corresponds to the number of feature maps or features produced.Then, in approach A, outputs of five blocks are concatenated and passed to the linear classifier. In approach B, output of only one block (block 3 in the final configuration) is passed to the linear classifier. In approach C CNN outputs are as in approach A, but instead connected to a DNN with two layers of 320 fully connected (FC) neurons followed by a prediction layer (PL), with number of neurons equal to number of species classified. Finally, approach D features CNN as in approach B which is connected to DNN as in approach C.
Fig. 1 in Pretrained Convolutional Neural Networks Perform Well in a Challenging Test Case: Identification of Plant Bugs (Hemiptera: Miridae) Using a Small Number of Training Images
Fig. 1. Dorsal habitus photos of males and females of Tuxedo spp., Pygovepres vaccinicola, and Phallospinophylus setosus generated for and used in this study.
Fig. 4 in Pretrained Convolutional Neural Networks Perform Well in a Challenging Test Case: Identification of Plant Bugs (Hemiptera: Miridae) Using a Small Number of Training Images
Fig. 4. Validation accuracy and accuracy on test data for SVM linear classifier (A, B) and DNN approaches (C, D) for the three datasets.
Fig. 3 in Pretrained Convolutional Neural Networks Perform Well in a Challenging Test Case: Identification of Plant Bugs (Hemiptera: Miridae) Using a Small Number of Training Images
Fig. 3. Identification accuracy for the male (top) and female (bottom) Tuxedo dataset for the five selected resolutions and the individual blocks 1–5 and the concatenated block.
Train and Test Dataset for a Neural Network for the task of RSA Segmentation in the context of a Master thesis 2024
<p>The data corresponds to the work of the master thesis "3D Segmentation of Plant Roots from MRI Images for Enhanced Automated Root Tracing using Deep Neural Networks" by Daniel Weißen from the 24/07/2024</p> <p>train_data.tar<br>- contains the training and validation data used for the DNN<br> - data_gmm contains the soil noise data based on a Gaussian Mixture Model<br> - data_FS contains the soil noise data based on the Fourier Synthesis approach described in the thesis</p> <p>test_data.tar<br>- contains the test data which is manually labeled</p> <p>segmentations.tar<br>- contains the segmentations of the trained SwinUNETR-V2+ on the real test MRIs<br> - fs_model_output: contains the Fourier Synthesis trained NNs segmentation<br> - fmm_model_output: contains the GMM trained NNs segmentation<br> - threshold_output: contains the Dice optimized threshold labeling</p> <p>FS_checkpoint.ckpt, GMM_checkpoint.ckpt<br>- contains the checkpoint for the trained SwinUNETR-V2+ on the Fourier synthesis, and GMM soil noise respectively</p>
HOPE (Harnessing Online Peer Education): Using Online Social Networks for HIV Prevention and Testing
ClinicalTrials.gov study NCT01701206. IPD Sharing: Not stated. Countries: 2. Publications: 2.
Testing the Efficacy of an Online Social Network Intervention to Increase Social Support for Physical Activity
ClinicalTrials.gov study NCT01421758. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Epidemiologic Intelligence Network (EpI-Net) to Promote COVID-19 Testing
ClinicalTrials.gov study NCT04910542. IPD Sharing: NO. Countries: 1. Publications: 1.
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.