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Datasets of "Influence of contrast and texture based image modifications on the performance and attention shift of U-Net models for brain tissue segmentation" Part 10 of 14
<p>This dataset is part of the work <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a>. This is the tenth part of 14 parts of the full dataset (10/14). It contains 3 sets of simulated T1 weighted brain volumes in 3 simulated scanning sequences of spin-echo. The parameters of simulated scanning sequences are respectively repetition time (TR) = 600ms, 700ms, 800ms, and echo time (TE) = 20ms. Under <strong>each</strong> simulated scanning sequence, there are 500 brain volumes.</p> <p>The segmentation labels for each tissue are contained in the first part which you may find at <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>The simulation process of this dataset involves two processes. The first is to simulate one brain under different simulated scanning sequences. For this, we use BrainWeb <a href="https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request">https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request</a>. In the custom setting, we use spin-echo and apply image artifact the same as the default setting of this page. The second process is to transform each simulated brain from BrainWeb to different anatomical shapes. We use Human Connectome Project (HCP) 1200 subject data <a href="https://www.humanconnectome.org/study/hcp-young-adult">https://www.humanconnectome.org/study/hcp-young-adult</a> and randomly select 500 brains as anatomical references.</p> <p>Other details of this dataset can be found at <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a> where the details of the data construction are discussed.</p> <p>All parts of the whole dataset can be found at:</p> <p>Part 1: <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>Part 2: <a href="https://zenodo.org/record/7389550">https://zenodo.org/record/7389550</a></p> <p>Part 3: <a href="https://zenodo.org/record/7390382">https://zenodo.org/record/7390382</a></p> <p>Part 4: <a href="https://zenodo.org/record/7390741">https://zenodo.org/record/7390741</a></p> <p>Part 5: <a href="https://zenodo.org/record/7391205">https://zenodo.org/record/7391205</a></p> <p>Part 6: <a href="https://zenodo.org/record/7393060">https://zenodo.org/record/7393060</a></p> <p>Part 7: <a href="https://zenodo.org/record/7393174">https://zenodo.org/record/7393174</a></p> <p>Part 8: <a href="https://zenodo.org/record/7393347">https://zenodo.org/record/7393347</a></p> <p>Part 9: <a href="https://zenodo.org/record/7394250">https://zenodo.org/record/7394250</a></p> <p>Part 10: <a href="https://zenodo.org/record/7394667">https://zenodo.org/record/7394667</a></p> <p>Part 11: <a href="https://zenodo.org/record/7394939">https://zenodo.org/record/7394939</a></p> <p>Part 12: <a href="https://zenodo.org/record/7395031">https://zenodo.org/record/7395031</a></p> <p>Part 13: <a href="https://zenodo.org/record/7395620">https://zenodo.org/record/7395620</a></p> <p>Part 14: <a href="https://zenodo.org/record/7395622">https://zenodo.org/record/7395622</a></p> <p> </p>
Datasets of "Influence of contrast and texture based image modifications on the performance and attention shift of U-Net models for brain tissue segmentation" Part 14 of 14
<p>This dataset is part of the work <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a>. This is the fourteenth and final part of 14 parts of the full dataset (14/14). It contains 3 sets of simulated T1 weighted brain volumes in 3 simulated scanning sequences of spin-echo. The parameters of simulated scanning sequences are respectively repetition time (TR) = 600ms, 700ms, 800ms, and echo time (TE) = 40ms. Under <strong>each</strong> simulated scanning sequence, there are 500 brain volumes.</p> <p>The segmentation labels for each tissue are contained in the first part which you may find at <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>The simulation process of this dataset involves two processes. The first is to simulate one brain under different simulated scanning sequences. For this, we use BrainWeb <a href="https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request">https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request</a>. In the custom setting, we use spin-echo and apply image artifact the same as the default setting of this page. The second process is to transform each simulated brain from BrainWeb to different anatomical shapes. We use Human Connectome Project (HCP) 1200 subject data <a href="https://www.humanconnectome.org/study/hcp-young-adult">https://www.humanconnectome.org/study/hcp-young-adult</a> and randomly select 500 brains as anatomical references.</p> <p>Other details of this dataset can be found at <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a> where the details of the data construction are discussed.</p> <p>All parts of the whole dataset can be found at:</p> <p>Part 1: <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>Part 2: <a href="https://zenodo.org/record/7389550">https://zenodo.org/record/7389550</a></p> <p>Part 3: <a href="https://zenodo.org/record/7390382">https://zenodo.org/record/7390382</a></p> <p>Part 4: <a href="https://zenodo.org/record/7390741">https://zenodo.org/record/7390741</a></p> <p>Part 5: <a href="https://zenodo.org/record/7391205">https://zenodo.org/record/7391205</a></p> <p>Part 6: <a href="https://zenodo.org/record/7393060">https://zenodo.org/record/7393060</a></p> <p>Part 7: <a href="https://zenodo.org/record/7393174">https://zenodo.org/record/7393174</a></p> <p>Part 8: <a href="https://zenodo.org/record/7393347">https://zenodo.org/record/7393347</a></p> <p>Part 9: <a href="https://zenodo.org/record/7394250">https://zenodo.org/record/7394250</a></p> <p>Part 10: <a href="https://zenodo.org/record/7394667">https://zenodo.org/record/7394667</a></p> <p>Part 11: <a href="https://zenodo.org/record/7394939">https://zenodo.org/record/7394939</a></p> <p>Part 12: <a href="https://zenodo.org/record/7395031">https://zenodo.org/record/7395031</a></p> <p>Part 13: <a href="https://zenodo.org/record/7395620">https://zenodo.org/record/7395620</a></p> <p>Part 14: <a href="https://zenodo.org/record/7395622">https://zenodo.org/record/7395622</a></p> <p> </p>
Datasets of "Influence of contrast and texture based image modifications on the performance and attention shift of U-Net models for brain tissue segmentation" Part 6 of 14
<p>This dataset is part of the work <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a>. This is the sixth part of 14 parts of the full dataset (6/14). It contains 3 sets of simulated T1 weighted brain volumes in 3 simulated scanning sequences of spin-echo. The parameters of simulated scanning sequences are respectively repetition time (TR) = 300ms, 400ms, 500ms, and echo time (TE) = 35ms. Under <strong>each</strong> simulated scanning sequence, there are 500 brain volumes.</p> <p>The segmentation labels for each tissue are contained in the first part which you may find at <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>The simulation process of this dataset involves two processes. The first is to simulate one brain under different simulated scanning sequences. For this, we use BrainWeb <a href="https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request">https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request</a>. In the custom setting, we use spin-echo and apply image artifact the same as the default setting of this page. The second process is to transform each simulated brain from BrainWeb to different anatomical shapes. We use Human Connectome Project (HCP) 1200 subject data <a href="https://www.humanconnectome.org/study/hcp-young-adult">https://www.humanconnectome.org/study/hcp-young-adult</a> and randomly select 500 brains as anatomical references.</p> <p>Other details of this dataset can be found at <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a> where the details of the data construction are discussed.</p> <p>All parts of the whole dataset can be found at:</p> <p>Part 1: <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>Part 2: <a href="https://zenodo.org/record/7389550">https://zenodo.org/record/7389550</a></p> <p>Part 3: <a href="https://zenodo.org/record/7390382">https://zenodo.org/record/7390382</a></p> <p>Part 4: <a href="https://zenodo.org/record/7390741">https://zenodo.org/record/7390741</a></p> <p>Part 5: <a href="https://zenodo.org/record/7391205">https://zenodo.org/record/7391205</a></p> <p>Part 6: <a href="https://zenodo.org/record/7393060">https://zenodo.org/record/7393060</a></p> <p>Part 7: <a href="https://zenodo.org/record/7393174">https://zenodo.org/record/7393174</a></p> <p>Part 8: <a href="https://zenodo.org/record/7393347">https://zenodo.org/record/7393347</a></p> <p>Part 9: <a href="https://zenodo.org/record/7394250">https://zenodo.org/record/7394250</a></p> <p>Part 10: <a href="https://zenodo.org/record/7394667">https://zenodo.org/record/7394667</a></p> <p>Part 11: <a href="https://zenodo.org/record/7394939">https://zenodo.org/record/7394939</a></p> <p>Part 12: <a href="https://zenodo.org/record/7395031">https://zenodo.org/record/7395031</a></p> <p>Part 13: <a href="https://zenodo.org/record/7395620">https://zenodo.org/record/7395620</a></p> <p>Part 14: <a href="https://zenodo.org/record/7395622">https://zenodo.org/record/7395622</a></p> <p> </p>
Datasets of "Influence of contrast and texture based image modifications on the performance and attention shift of U-Net models for brain tissue segmentation" Part 8 of 14
<p>This dataset is part of the work <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a>. This is the eighth part of 14 parts of the full dataset (8/14). It contains 3 sets of simulated T1 weighted brain volumes in 3 simulated scanning sequences of spin-echo. The parameters of simulated scanning sequences are respectively repetition time (TR) = 600ms, 700ms, 800ms, and echo time (TE) = 10ms. Under <strong>each</strong> simulated scanning sequence, there are 500 brain volumes.</p> <p>The segmentation labels for each tissue are contained in the first part which you may find at <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>The simulation process of this dataset involves two processes. The first is to simulate one brain under different simulated scanning sequences. For this, we use BrainWeb <a href="https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request">https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request</a>. In the custom setting, we use spin-echo and apply image artifact the same as the default setting of this page. The second process is to transform each simulated brain from BrainWeb to different anatomical shapes. We use Human Connectome Project (HCP) 1200 subject data <a href="https://www.humanconnectome.org/study/hcp-young-adult">https://www.humanconnectome.org/study/hcp-young-adult</a> and randomly select 500 brains as anatomical references.</p> <p>Other details of this dataset can be found at <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a> where the details of the data construction are discussed.</p> <p>All parts of the whole dataset can be found at:</p> <p>Part 1: <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>Part 2: <a href="https://zenodo.org/record/7389550">https://zenodo.org/record/7389550</a></p> <p>Part 3: <a href="https://zenodo.org/record/7390382">https://zenodo.org/record/7390382</a></p> <p>Part 4: <a href="https://zenodo.org/record/7390741">https://zenodo.org/record/7390741</a></p> <p>Part 5: <a href="https://zenodo.org/record/7391205">https://zenodo.org/record/7391205</a></p> <p>Part 6: <a href="https://zenodo.org/record/7393060">https://zenodo.org/record/7393060</a></p> <p>Part 7: <a href="https://zenodo.org/record/7393174">https://zenodo.org/record/7393174</a></p> <p>Part 8: <a href="https://zenodo.org/record/7393347">https://zenodo.org/record/7393347</a></p> <p>Part 9: <a href="https://zenodo.org/record/7394250">https://zenodo.org/record/7394250</a></p> <p>Part 10: <a href="https://zenodo.org/record/7394667">https://zenodo.org/record/7394667</a></p> <p>Part 11: <a href="https://zenodo.org/record/7394939">https://zenodo.org/record/7394939</a></p> <p>Part 12: <a href="https://zenodo.org/record/7395031">https://zenodo.org/record/7395031</a></p> <p>Part 13: <a href="https://zenodo.org/record/7395620">https://zenodo.org/record/7395620</a></p> <p>Part 14: <a href="https://zenodo.org/record/7395622">https://zenodo.org/record/7395622</a></p> <p> </p>
Datasets of "Influence of contrast and texture based image modifications on the performance and attention shift of U-Net models for brain tissue segmentation" Part 13 of 14
<p>This dataset is part of the work <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a>. This is the thirteenth part of 14 parts of the full dataset (13/14). It contains 3 sets of simulated T1 weighted brain volumes in 3 simulated scanning sequences of spin-echo. The parameters of simulated scanning sequences are respectively repetition time (TR) = 600ms, 700ms, 800ms, and echo time (TE) = 35ms. Under <strong>each</strong> simulated scanning sequence, there are 500 brain volumes.</p> <p>The segmentation labels for each tissue are contained in the first part which you may find at <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>The simulation process of this dataset involves two processes. The first is to simulate one brain under different simulated scanning sequences. For this, we use BrainWeb <a href="https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request">https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request</a>. In the custom setting, we use spin-echo and apply image artifact the same as the default setting of this page. The second process is to transform each simulated brain from BrainWeb to different anatomical shapes. We use Human Connectome Project (HCP) 1200 subject data <a href="https://www.humanconnectome.org/study/hcp-young-adult">https://www.humanconnectome.org/study/hcp-young-adult</a> and randomly select 500 brains as anatomical references.</p> <p>Other details of this dataset can be found at <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a> where the details of the data construction are discussed.</p> <p>All parts of the whole dataset can be found at:</p> <p>Part 1: <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>Part 2: <a href="https://zenodo.org/record/7389550">https://zenodo.org/record/7389550</a></p> <p>Part 3: <a href="https://zenodo.org/record/7390382">https://zenodo.org/record/7390382</a></p> <p>Part 4: <a href="https://zenodo.org/record/7390741">https://zenodo.org/record/7390741</a></p> <p>Part 5: <a href="https://zenodo.org/record/7391205">https://zenodo.org/record/7391205</a></p> <p>Part 6: <a href="https://zenodo.org/record/7393060">https://zenodo.org/record/7393060</a></p> <p>Part 7: <a href="https://zenodo.org/record/7393174">https://zenodo.org/record/7393174</a></p> <p>Part 8: <a href="https://zenodo.org/record/7393347">https://zenodo.org/record/7393347</a></p> <p>Part 9: <a href="https://zenodo.org/record/7394250">https://zenodo.org/record/7394250</a></p> <p>Part 10: <a href="https://zenodo.org/record/7394667">https://zenodo.org/record/7394667</a></p> <p>Part 11: <a href="https://zenodo.org/record/7394939">https://zenodo.org/record/7394939</a></p> <p>Part 12: <a href="https://zenodo.org/record/7395031">https://zenodo.org/record/7395031</a></p> <p>Part 13: <a href="https://zenodo.org/record/7395620">https://zenodo.org/record/7395620</a></p> <p>Part 14: <a href="https://zenodo.org/record/7395622">https://zenodo.org/record/7395622</a></p> <p> </p>
Datasets of "Influence of contrast and texture based image modifications on the performance and attention shift of U-Net models for brain tissue segmentation" Part 7 of 14
<p>This dataset is part of the work <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a>. This is the seventh part of 14 parts of the full dataset (7/14). It contains 3 sets of simulated T1 weighted brain volumes in 3 simulated scanning sequences of spin-echo. The parameters of simulated scanning sequences are respectively repetition time (TR) = 300ms, 400ms, 500ms, and echo time (TE) = 40ms. Under <strong>each</strong> simulated scanning sequence, there are 500 brain volumes.</p> <p>The segmentation labels for each tissue are contained in the first part which you may find at <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>The simulation process of this dataset involves two processes. The first is to simulate one brain under different simulated scanning sequences. For this, we use BrainWeb <a href="https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request">https://brainweb.bic.mni.mcgill.ca/cgi/bw/submit_request</a>. In the custom setting, we use spin-echo and apply image artifact the same as the default setting of this page. The second process is to transform each simulated brain from BrainWeb to different anatomical shapes. We use Human Connectome Project (HCP) 1200 subject data <a href="https://www.humanconnectome.org/study/hcp-young-adult">https://www.humanconnectome.org/study/hcp-young-adult</a> and randomly select 500 brains as anatomical references.</p> <p>Other details of this dataset can be found at <a href="https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full">https://www.frontiersin.org/articles/10.3389/fnimg.2022.1012639/full</a> where the details of the data construction are discussed.</p> <p>All parts of the whole dataset can be found at:</p> <p>Part 1: <a href="https://zenodo.org/record/7294916">https://zenodo.org/record/7294916</a></p> <p>Part 2: <a href="https://zenodo.org/record/7389550">https://zenodo.org/record/7389550</a></p> <p>Part 3: <a href="https://zenodo.org/record/7390382">https://zenodo.org/record/7390382</a></p> <p>Part 4: <a href="https://zenodo.org/record/7390741">https://zenodo.org/record/7390741</a></p> <p>Part 5: <a href="https://zenodo.org/record/7391205">https://zenodo.org/record/7391205</a></p> <p>Part 6: <a href="https://zenodo.org/record/7393060">https://zenodo.org/record/7393060</a></p> <p>Part 7: <a href="https://zenodo.org/record/7393174">https://zenodo.org/record/7393174</a></p> <p>Part 8: <a href="https://zenodo.org/record/7393347">https://zenodo.org/record/7393347</a></p> <p>Part 9: <a href="https://zenodo.org/record/7394250">https://zenodo.org/record/7394250</a></p> <p>Part 10: <a href="https://zenodo.org/record/7394667">https://zenodo.org/record/7394667</a></p> <p>Part 11: <a href="https://zenodo.org/record/7394939">https://zenodo.org/record/7394939</a></p> <p>Part 12: <a href="https://zenodo.org/record/7395031">https://zenodo.org/record/7395031</a></p> <p>Part 13: <a href="https://zenodo.org/record/7395620">https://zenodo.org/record/7395620</a></p> <p>Part 14: <a href="https://zenodo.org/record/7395622">https://zenodo.org/record/7395622</a></p>
Antagonism between viral infection and innate immunity at the single-cell level -- Immunostaining Imaging Dataset
<p>This dataset accompanies the article "Antagonism between viral infection and innate immunity at the single-cell level", at the time of submission available as a <a href="https://doi.org/10.1101/2022.11.18.517110">preprint</a>.</p>
PixelCropRobot dataset: images of vegetables crops in different phenological stages taken in greenhouses
<p><em>Dataset created under the PixelCropRobot project, developed by FCUP, INESC TEC and FEUP.</em></p> <p><strong>Dataset folder:</strong></p> <blockquote> <p>This folder contains the images of each species in two formats (3456 × 4608 pixels and 864 × 1152 pixels), the annotations of the 864 × 1152 px. images, in Pascal VOC (.xml) and YOLO (.txt) formats and also a set of Python scripts useful for managing the dataset.</p> </blockquote> <p>The aim was to capture images of eight crops selected taking into account the length of the crop cycle (annual), the intensity of agricultural practices (mainly weed removal) and the low impact of pests and diseases.</p> <p>The images were captured using a smartphone (Huawei Mate 10 Lite), with 16 megapixels (MP) resolution (3456 × 4608 px.), in Professional mode (no flash, continuous autofocus, automatic ISO and shutter speed). Image collection took place at different hours of the day, with variable lighting conditions.</p> <p>The images are divided as follows (in parenthesis are the classes):</p> <ul> <li>Arugula - 312 (coty, minus9, plus9)</li> <li>Carrot - 533 (coty, smallleaves, carrot)</li> <li>Coriander - 321 (coty, smallleaves, coriander)</li> <li>Lettuce - 1426 (coty, minus9, plus9, ready)</li> <li>Radish - 494 (coty, smallleaves, bigleaves, root)</li> <li>Spinach - 270 (spinach, big)</li> <li>Swiss chard - 454 (coty, chard)</li> <li>Turnip - 313 (coty, smallleaves, turnip)</li> </ul> <p>To standardise the dataset, each image was renamed according to the corresponding EPPO (European and Mediterranean Plant Protection Organization) code and the date of creation of that image. The size of each image was also reduced four times (to 864 × 1152 pixels) to facilitate processing. For example, an image of lettuce captured on June 22 presents the name as follows: LACSA_Jun_22_x_864_1152.jpg.</p>
Dataset of image processing - High-throughput characterization of cortical microtubule arrays response to anisotropic tensile stress
<p>The data set contains the analysis data files from the image analysis workflow developed to quantify cortical microtubules rearrangements in the case of tensile stress (<a href="https://github.com/VergerLab/MT_Angle2Ablation_Workflow">https://github.com/VergerLab/MT_Angle2Ablation_Workflow</a>), generated form a specific dataset (https://doi.org/10.5878/17te-jg54). The files include the intermediary images processed at each step of the image analysis workflow in imageJ, the log files produced by the imageJ macro describing the input and the output images and the text files containing the quantified values. </p>
Synthetic dataset used for validating MDSPACE method for analyzing continuous conformational variability of biomolecules in cryo-EM single particle images
<p>Synthetic dataset used for validating MDSPACE method for analyzing continuous conformational variability of biomolecules in cryo-EM single particle images. A README file with the contents of the dataset is included. </p>
In Situ Photoluminescence Imaging Dataset of Blade-Coated Perovskite Photovoltaics
<p><strong>Content:</strong></p> <p>The dataset contains time-resolved in situ images acquired during the formation of the perovskite layer which is then built into a perovskite solar cell. The image time series in the dataset encompass the drying and crystallization of the blade-coated perovskite thin-films. An initial exploration of the data presented in the dataset is conducted in the paper <strong><a href="https://doi.org/10.1002/solr.202201114">Process Insights into Perovskite Thin-Film Photovoltaics from Machine Learning with In Situ Luminescence Data</a>.</strong></p> <p>A total of 1,129 solar cells were fabricated using the blade coating deposition method. To monitor the vacuum quenching process of the perovskite layer, a photoluminescence (PL) imaging setup was used to capture four channels of image data. These channels included time series images (2D+t) captured through various spectral filters, with one channel showing reflectance and the other three showing different parts of the PL spectrum. The three PL channels with different spectral transmissions were also used to compute a image time series of spatially resolved PL peak wavelengths. All images were cropped into smaller patches of 65x56 pixels each, which only included the active area of a single solar cell.</p> <p>Different metrics are available as target variables. For each solar cell in the dataset, the photovoltaic performance parameters, namely (1) power conversion efficiency (PCE), (2) open-circuit voltage (<em>V<sub>OC</sub></em>), (3) short-circuit current density (<em>J<sub>SC</sub></em>), and (4) fill factor (FF)), are available (measured backward and forward, as well as the average between forward and backward). Furthermore, information about the perovskite layer thickness of each solar cell’s active area is provided: mean thickness, root-mean-square thickness, and peak-2-valley thickness. Also, additional information like substrate ID and the position of each solar cell within its substrate is provided.</p> <p>All solar cells were fabricated using the same materials, methods, and experimental parameters. As a result, the dataset can be used to apply machine learning techniques to identify variations in the fabrication process between iterations, improve understanding of the process, and predict performance in-line before completing the half-stack into a functional solar cell.</p> <p>Further information on the experimental acquisition procedure can be found in the paper <a href="https://doi.org/10.1002/solr.202201114"><strong>Process Insights into Perovskite Thin-Film Photovoltaics from Machine Learning with In Situ Luminescence Data</strong>.</a></p> <p> </p> <p><strong>Usage:</strong></p> <p>The dataset is made available as a single hdf5-file. The npy-data can be extracted using the notebook “00_extract_data_from_hdf5_file.ipynb” which is provided in the GitHub repository <a href="https://github.com/AI-InSu-Pero/ML-PerovskitePV-InSituLuminescene">https://github.com/AI-InSu-Pero/ML-PerovskitePV-InSituLuminescene</a> </p> <p>The structure of the dataset after extraction from the hdf5-file is depicted below. The dataset (1,129 solar cells) is split into two subfolders, containing train (780 solar cells) and test data (349 solar cell), respectively. For training and test data, the corresponding labels are listed in csv files. In the train and test folders, there are subfolders for each of the substrate assigned to either of the two sets. In the substrate folders, the data for all the patches of a substrate is saved in npy-format with the shape (719, 5, 65, 56), representing (time step, channel, image height, image width). It can be loaded using numpy.load(path_to_file). The order of the five channels is as follows: (0) reflectance, (1) entire PL spectrum, (2) filtered PL spectrum – longer wavelengths remaining, (3) filtered PL spectrum – shorter wavelengths remaining, (4) computed peak wavelength of PL spectrum.</p> <p>In the train folder, an additional folder “cv_splits_5fold” gives the train and validation splits for the 5-fold cross-validation used in the dataset exploration paper. For each fold, the labels are given as csv-files for train and validation split.</p> <p> </p> <pre><code>dataset ├── train │ ├── ACA │ │ ├── 11.npy │ │ ├── 12.npy │ │ ├── 13.npy │ │ ├── 14.npy │ │ ├── 21.npy │ │ └── ... (all other patches of this substrate) │ ├── ACA │ │ ├── 11.npy │ │ ├── 12.npy │ │ ├── 13.npy │ │ ├── 14.npy │ │ ├── 21.npy │ │ └── ... (all other patches of this substrate) │ ├── ... (all other train substrates) │ ├── cv_splits_5fold │ │ ├── fold0 │ │ │ ├── train.csv │ │ │ └── val.csv │ │ └── ... (all other folds) │ └─── labels.csv └── test ├── ACE │ ├── 11.npy │ ├── 12.npy │ ├── 13.npy │ ├── 14.npy │ ├── 21.npy │ └── ... (all other patches of this substrate) ├── ... (all other test substrates) └── labels.csv </code></pre> <p> </p>
DECIMER - Hand-drawn molecule images dataset
<p><strong>DECIMER - Hand-drawn molecule images dataset</strong></p> <p>The translation of images of chemical structures into machine-readable representations of the depicted molecules is known as optical chemical structure recognition (OCSR). There has been a lot of progress over the last three decades in this field, but the development of systems for the recognition of complex hand-drawn structure depictions is still at the beginning. Currently, there is no data for the systematic evaluation of OCSR methods on hand-drawn structures available.</p> <p>Here we present DECIMER - Hand-drawn molecule images, a standardised, openly available benchmark dataset of 5088 hand-drawn depictions of diversely picked chemical structures. Every structure depiction in the dataset is mapped to a machine-readable representation of the underlying molecule. The dataset is openly available and published under the CC-BY 4.0 licence which applies very few limitations. We hope that it will contribute to the further development of the field.</p>
Dataset of cotton phenology images
<p>The dataset contains labels about the the phenological stages of cotton at the parcel level, generated by in-situ inspections in the region of Orchomenos, Greece, during the cotton cultivation period of 2021 (May-October). We collected 1,285 crop growth ground<br> observations. We introduce a new collection protocol, assigning up to two phenology labels that represent the primary and secondary growth stage in the field and thus indicate when stages are transitioning. More information about the annotation procedure can be found in the relevant publication "<a href="https://arxiv.org/abs/2211.14099">Fuzzy clustering for the within-season estimation of cotton phenology</a>". </p> <p>Along with the annotations we are publishing a unique dataset of 3,142 images. Each image is named in the following format:</p> <p> {date}_{id}-{type}.jpg, where "<strong>date"</strong> is in the format {year}{month}{day} and refer to the exact date the image was captured, "<strong>id</strong><em><strong>"</strong></em> is the unique id of a parcel and "<strong>type</strong>" is one of "O", "A" or "B". "O" refers to a panoramic photo of the entire field, "A" to a photo that is representative of the majority of the plants in the field and "B" to one representative of a minority of plants in the field. For each date and each unique parcel the first two exists always while the latter close-up photo had be captured only when the percentage of the minority class, in terms of area, was deemed significant. </p> <p>If you use this dataset, please cite our <a href="https://arxiv.org/abs/2211.14099">paper</a>:</p> <blockquote> <pre>@article{sitokonstantinou2022fuzzy, title={Fuzzy clustering for the within-season estimation of cotton phenology}, author={Sitokonstantinou, Vasileios and Koukos, Alkiviadis and Tsoumas, Ilias and Bartsotas, Nikolaos S and Kontoes, Charalampos and Karathanassi, Vassilia}, journal={PLOS ONE}, year={2023}, doi={10.1371/journal.pone.0282364} }</pre> </blockquote>
Literature Datasets for the publication "Systematic Review: Prevalence and Practices of Immunofluorescent Cell Image Processing"
<p>This dataset contains the CSV files returned from PubMed searches used to complete a Systematic Review of Image Processing Publication Practices for methods applied to immunofluorescent images of all CNS cells. <br> <br> The file names are organized "date_supplementarytablenumber" followed by the appropriate search terms. </p>
Magnetic Resonance Imaging Glucose Study Dataset
<p>The data has been produced by the Institut für Mikrostrukturtechnik (IMT) at Karlsruher Institut für Technologie (KIT). This dataset represents the DICOM (Digital Imaging and Communications in Medicine) files, which belong to one MRI (Magnetic Resonance Imaging) study and contain a series of images that have been measured with different protocols. The samples shown by the images are tubes, which contain different concentrations of Glucose. The DICOM file headers have metadata tags, which embody additional information about the study and the particular series.</p>
A subjective image quality assessment dataset of color graded inverse tone-mapped HDR images
<p>A subjective image quality assessment dataset that includes quality scores of HDR images generated by nine inverse tone mapping methods. The images in the dataset show a wide variety of artifacts commonly present in dynamic range expanded HDR images. Twelve image pairs comprised of an LDR image and its corresponding HDR version were used to conduct the subjective assessment study. These images contain scenes with a wide range of light conditions, representing challenging situations for dynamic range expansion methods.</p> <p>The image quality dataset includes subjective quality scores for 108 inverse HDR images obtained by the different dynamic range expansion methods, scaled in Just Objectionable Differences (JODs). In addition, it includes the raw data from pairwise comparisons obtained from subjective experimentation. The raw data is composed of 6480 trials collected from 15 human observers.</p> <p><strong>Files included</strong></p> <ul> <li>List of images used in our experiments (images.csv).</li> <li>LDR images used as input (ldr.zip).</li> <li>HDR images used as reference (hdr.zip).</li> <li>Inverse tone-mapped HDR images evaluated in our study (hdr_itmo.zip).</li> <li>Pairwise comparison results and JOD scores (subjective-scores.zip)</li> <li>The objective quality scores of the inverse tone-mapped HDR images, computed by each quality metric assessed (objective-scores.zip).</li> </ul> <p> </p>
Raw Synthetic Particle Image Dataset (RSPID)
<p>Synthetic Particle Image Velocimetry (PIV) data generated by PIV Image Generator Software. Which is a tool that generates synthetic Particle Imaging Velocimetry (PIV) images with the purpose of validating and benchmarking PIV and Optical Flow methods in tracer based imaging for fluid mechanics (Mendes et al., 2020). </p><p>This data was generated with the following parameters:</p><ul><li>image width: 665 pixels;</li><li>image height: 630 pixels;</li><li>bit depth: 8 bits;</li><li>particle radius: 1, 2, 3, 4 pixels;</li><li>particle density: 15, 17, 20, 23, 25, 32 particles;</li><li>delta x factor: 0.05, 0.1, 0.15, 0.2, 0.25 %;</li><li>noise level: 1, 5, 10, 15;</li><li>out-of-plane standard deviation: 0.01, 0.025, 0.05;</li><li>flows: rankine uniform, rankine vortex, parabolic, stagnation, shear, decaying vortex.</li></ul>
RoadArrowORIEN: dataset of 6701 images (64x64 pixels) of straight arrow-type road markings and their azimuths
<p>The dataset consisting of 6701 PNG images (64x64 pixels) of straight arrow type road markings with different dimensions and orientations, together with the angle it forms with respect to the vertical axis (azimuth), has been constructed in the framework of the SROADEX project to train a regression neural network to calculate the azimuth of other straight arrows that can be identified in high resolution aerial orthoimages.</p> <p>The dataset was created by labeling with the labelme tool the straight arrows on orthoimage tesserae of 256x256 pixels. After semantic labeling by drawing an arrow on the orthoimage, the data was automatically processed to calculate the azimuthal angle. The procedure followed is as follows:<br> 1.- The vertices of the generated arrow-shaped polygon have been extracted.<br> 2.- Clusters of nearby points have been generated, with a minimum of 2 points and the cluster with less points and the one with more points has been identified. <br> 3.- For the clusters, the centroid has been generated, preserving the information of the number of vertices that define the cluster.<br> 4.- Then a vector has been generated with origin in the centroid of the arrow with less vertices grouped and as end the centroid with the highest number of vertices.<br> 5.- Finally, the azimuth of this vector with respect to the ordinate axis has been calculated, <br> The images have been automatically cropped with a constant size of 64x64 pixels taking an extension greater than the occupied of the arrow in the scene.</p> <p>The shared dataset consists of a compressed file with the images and a text file in CSV format with the names of the images and the normaliced [0..1] Azimutal angles of the straight arrows contained in the images.</p>
ISLES 2022: A multi-center magnetic resonance imaging stroke lesion segmentation dataset.
<p>This multi-center dataset consists of 250 expert-annotated magnetic resonance imaging stroke cases. It is the training dataset for the Ischemic Stroke Lesion Segmentation Challenge (ISLES'22).</p> <p>For each case, an expert level annotation of the stroke lesions is included along with the following three imaging sequences: Fluid attenuated inversion recovery (FLAIR), diffusion weighted imaging (DWI, b=1000) and its corresponding apparent diffusion coefficient (ADC) map. All imaging data and annotations are released in the Neuroimaging Informatics Technology Initiative (NIfTI) format (https://nifti.nimh.nih.gov/nifti-1), according to the BIDS convention. All imaging data are released in the native space without prior registration. Prior to release, skull-stripping was performed to de-identify patients.</p> <p>Image acquisition was performed on one of the following devices: 3T Philips MRI scanners (Achieva, Ingenia), 3T Siemens MRI scanner (Verio) or 1.5T Siemens MAGNETOM MRI scanners (Avanto, Aera). All images were obtained by healthcare professionals as part of the clinical imaging routine for stroke patients at three different stroke centers and imaging data was collected retrospectively for different clinical studies. Computer-readable scanner metadata from the Digital Imaging and Communications in Medicine (DICOM) header in the JSON file format is provided with the datasets if available.</p> <p>For a full dataset description, see the <a href="https://arxiv.org/abs/2206.06694">ISLES'22 preprint</a>.</p> <p>More information about the ISLES'22 challenge can be found in <a href="https://isles22.grand-challenge.org/">grand challenge</a> and in our official <a href="http://www.isles-challenge.org/">challenge website</a>.</p> <h3>Please cite the following works when using this dataset:</h3> <ul> <li>de la Rosa, Ezequiel, et al. <strong>DeepISLES: a clinically validated ischemic stroke segmentation model from the ISLES'22 challenge.</strong> <em>Nature Communications</em> 16.1 (2025): 7357.</li> <li>Hernandez Petzsche, Moritz R., et al. <strong>ISLES 2022: A multi-center magnetic resonance imaging stroke lesion segmentation dataset.</strong> <em>Scientific data</em> 9.1 (2022): 762.</li> </ul>
Unmanned Aerial Vehicle Image Dataset of the Built Environment for 3D reconstruction (UAVID3D)
<p>Unmanned Aerial Vehicles (UAV) provide increased access to unique types of urban imagery traditionally not available. Advanced machine learning and computer vision techniques when applied to UAV RGB image data can be used for automated extraction of building asset information and if applied to UAV thermal imagery data can detect potential thermal anomalies. However, these UAV datasets are not easily available to researchers, thereby creating a barrier to accelerating research in this area. </p> <p>To assist researchers with added data to develop machine learning algorithms, we present UAVID3D (Unmanned Aerial Vehicle (UAV) Image Dataset of the Built Environment for 3D reconstruction). The raw images for our dataset were recorded with a Zenmuse XT2 visual (RGB) and a FLIR Tau 2 (thermal, https://flir.netx.net/file/asset/15598/original/) camera on a DJI Mavic 2 pro drone (https://www.dji.com/matrice-200-series). The thermal camera is factory calibrated. All data is organized and structured to comply with FAIR principles, i.e. being findable, accessible, interoperable, and reusable. It is publicly available and can be downloaded from the Zenodo data repository. </p> <p>RGB images were recorded during UAV fly-overs of two different commercial buildings in Northern California. In addition, thermographic images were recorded during 2 subsequent UAV fly-overs of the same two buildings. UAV flights were recorded at flight heights between 60–80 m above ground with a flight speed of 1 m s and contain GPS information. All images were recorded during drone flights on May 10, 2021 between 8:45 am and 10:30 am and on May 19, 2021 between 2:15 pm and 4:30 pm. Outdoor air temperatures on these two days during the flights were between 78 and 83 degree fahrenheit and between 58 and 65 degree fahrenheit respectively. </p> <p>For the RGB flights, UAV path was planned and captured using an orbital flight plan in PIX4D capture at normal flight speed and overlap angle of 10 degree. Thermal images were captured by manual flights approximately 5 m away from each building facade. Due to the high overlap of images, similarities from feature points identified in each image can be extracted to conduct photogrammetry. Photogrammetry allows estimation of the three-dimensional coordinates of points on an object in a generated 3D space involving measurements made on images taken with a high overlap rate. Photogrammetry can be used to create a 3D point cloud model of the recorded region. UAVID3D dataset is a series of compressed archive files totaling 21GB. Useful pipelines to process these images can be found at these two repositories <a href="https://github.com/LBNL-ETA/a3dbr">https://github.com/LBNL-ETA/a3dbr</a>, and <a href="https://github.com/LBNL-ETA/AutoBFE">https://github.com/LBNL-ETA/AutoBFE</a></p> <p>This work was supported by the Assistant Secretary for Energy Efficiency and Renewable Energy, Building Technologies Program, of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231. </p> <p> </p> <p> </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.