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166 results for “open-source”
Input Files and Processed Results for FreeMHD: validation and verification of the open-source, multi-domain, multi-phase solver for electrically conductive flows
<p><strong>Input Files (StartingFiles.zip) and Processed Results (FreeMHDPaperAllFigures.zip) used to make paper figures. </strong></p> <p> </p> <p>FreeMHD: validation and verification of the open-source, multi-domain, multi-phase solver for electrically conductive flows</p> <p><em>The extreme heat fluxes in the divertor region of tokamaks may require an alternative to solid plasma-facing components, for the extraction of heat and the protection of the surrounding walls. Flowing liquid metals are proposed as an alternative, but raise additional challenges that require investigation and numerical simulations. Free surface designs are desirable for plasma-facing components (PFCs), but steady flow profiles and surface stability must be ensured to limit undesirable interactions with the plasma. Previous studies have mainly used steady-state, 2D, or simplified models for internal flows and have not been able to adequately model free-surface liquid metal (LM) experiments. Therefore, FreeMHD has been recently developed as an open-source magnetohydrodynamics (MHD) solver for free-surface electrically conductive flows subject to a strong external magnetic field. The FreeMHD solver computes incompressible free-surface flows with multi-region coupling for the investigation of MHD phenomena involving fluid and solid domains. The model utilizes the finite-volume OpenFOAM framework under the low magnetic Reynolds number approximation. FreeMHD is validated using analytical solutions for the velocity profiles of closed channel flows with various Hartmann numbers and wall conductance ratios. Next, experimental measurements are then used to verify FreeMHD, through a series of cases involving dam breaking, 3D magnetic fields, and free-surface LM flows. These results demonstrate that FreeMHD is a reliable tool for the design of LM systems under free surface conditions at the reactor scale. Furthermore, it is flexible, computationally inexpensive, and can be used to solve fully 3D transient MHD flows.</em></p>
Different community open-source evaluation and benchmarking tools with their respective characteristics
<p>Schematic of different community open-source evaluation and benchmarking tools with their respective characteristics.</p>
Replication Package for "Classifying Open-Source Pre-Trained Models and Datasets for Software Engineering"
<p>The replication package for the short paper titled 'Classifying Open-Source Pre-Trained Models and Datasets for Software Engineering' is provided. It includes a README file and accompanying scripts with comprehensive instructions to facilitate the replication of the analysis presented in the paper.</p>
Orbit Image Analysis: An open-source whole slide image analysis tool
<p>This is a whole slide image (WSI) dataset for glomeruli segmentation on kidney tissue, in total 88 images.</p> <p>The train-set (58 images) and test-set (32 images) has been used in the publication "Orbit Image Analysis: An open-source whole slide image analysis tool" to train and test the<br> glomeruli segmentation model.</p>
Replication Kit: "Are Unit and Integration Test Definitions Still Valid for Modern Java Projects? An Empirical Study on Open-Source Projects"
<p><strong>Replication Kit for the Paper "Are Unit and Integration Test Definitions Still Valid for Modern Java Projects? An Empirical Study on Open-Source Projects"</strong><br> This additional material shall provide other researchers with the ability to replicate our results. Furthermore, we want to facilitate further insights that might be generated based on our data sets.</p> <p><strong>Structure</strong><br> The structure of the replication kit is as follows:</p> <ul> <li><strong>additional_visualizations</strong>: contains additional visualizations (Venn-Diagrams) for each projects for each of the data sets that we used</li> <li><strong>data_analysis</strong>: contains python scripts that we used to analyze our raw data</li> <li><strong>data_collection_tools</strong>: contains all source code used for the data collection, including the used versions of the <a href="https://github.com/comfort-framework">COMFORT framework</a>, the <a href="https://github.com/ftrautsch/BugFixClassifier">BugFixClassifier</a>, and the used tools of the <a href="https://github.com/smartshark">SmartSHARK environment</a>;</li> <li><strong>mongodb_no_authors</strong>: Archived dump of our MongoDB that we created by executing our data collection tools. The "comfort" database can be restored via the mongorestore command.</li> </ul> <p><br> <strong>Additional Visualizations</strong><br> We provide two additional visualizations for each project:<br> 1) <project_name>\_disj\_ieee\_venn (visualizations for the DISJ data set)<br> 2) <project_name>\_all\_ieee\_venn (visualizations for the ALL data set)</p> <p>For each of these data sets there exist one visualization for each project that shows four Venn-Diagrams for each of the different defect types. These Venn-Diagrams show the number of defects that were detected by either unit, or integration tests (or both).</p> <p>Furthermore, we added boxplots for each of the data sets (i.e., ALL and DISJ) showing the scores of unit and integration tests for each defect type.</p> <p><br> <strong>Analysis scripts</strong><br> Requirements:<br> - python3.5<br> - tabulate<br> - scipy<br> - seaborn<br> - mongoengine<br> - pycoshark<br> - pandas<br> - matplotlib</p> <p>Both python files contain all code for the statistical analysis we performed.</p> <p><strong>Data Collection Tools</strong><br> We provide all data collection tools that we have implemented and used throughout our paper:</p> <ul> <li><strong>BugFixClassifier</strong>: Used to classify our defects.</li> <li><strong>comfort-core</strong>: Core of the comfort framework. Used to classify our tests into unit and integration tests and calculate different metrics for these tests.</li> <li><strong>comfort-jacoco-listner</strong>: Used to intercept the coverage collection process as we were executing the tests of our case study projects.</li> <li><strong>jSHARK</strong>: Library that contains models for the used ORM mapper that is used inside the SmartSHARK environment (for Java).<strong> </strong></li> <li><strong>pycoSHARK</strong>: Library that contains models for the used ORM mapper that is used inside the SmartSHARK environment (for Python).</li> <li><strong>tools-changedistiller</strong>: Version of ChangeDistiller that we used within our comfort-core framework.</li> <li><strong>vcsSHARK</strong>: Used to collect data from the VCSs of the projects.</li> </ul> <p> </p> <p> </p>
An Open-Source Platform for Head-Fixed Operant and Consummatory Behavior
<p>This is a repository containing all data and analysis codes for Gordon-Fennell et al. 2023 from the lab of Dr. Garret Stuber.</p>
Datasets for Oktoberfest: Open-source spectral library generation and rescoring pipeline based on Prosit
<p>This sdataset contains two zip files, one for the HLA and one for metaproteomics data. These contain the results from individual oktoberfest runs for the publication including the required msms.txt files and percolator outputs.</p>
Data and code for "An open-source alignment method for multichannel infinite-conjugate microscopes using a ray transfer matrix analysis model"
<p>Original data and code associated with the paper "An open-source alignment method for multichannel infinite-conjugate microscopes using a ray transfer matrix analysis model".<br> <br> Further details on the data are available in the readme.txt files.</p>
Data and code for: "An open-source GIS approach to understanding dunefield morphologic variability at Kati Thanda (Lake Eyre), central Australia"
<p>Data and reproducabel code</p>
Empirical Exploration of Open-Source Issues for Predicting Privacy Compliance
<p>The dataset for the above publication RQ1</p>
Open-Source System for Real Time Functional Assessment of In-Vitro Filtration Barriers
<p>Microphysiological systems that incorporate synthetic or natural membranes with human cells mimic the human kidney, and they can readily be used to study key cell biological processes as well as drug effects and interactions. We present an affordable, open-source platform for the real-time monitoring of functional filtration status in engineered microphysiological systems. Using readily available components, our assay can linearly detect concentrations of two target molecules, FITC-labeled inulin and Texas Red-labeled human serum albumin, within clinically relevant ranges, and can be easily modified to integrate with different target molecules of different sizes and tags. We show that the platform enables real-time tracking of size-dependent diffusion with minimal fluid volume loss and without manual extraction of media, making it suitable for continuous operational monitoring of filtration status of microphysiological systems. The platform’s affordability and integrability with microphysiological systems make it ideal for many precision medicine applications, including evaluation of drug nephrotoxicity assessment and other forms of drug discovery applications.</p>
3D Lung Reconstructions Using Open-source Software for Lung Cancer Surgery
ClinicalTrials.gov study NCT06132607. IPD Sharing: NO. Countries: 1. Publications: 1.
Accuracy of Open-source Software in Semi-automatic 3-Dimensional Reconstruction of the Mandible
ClinicalTrials.gov study NCT05055986. IPD Sharing: YES. Countries: 1. Publications: 4.
Responses to CPET in Subjects With Persistent Exercise Intolerance After COVID-19: an Open-Source Exercise Network
ClinicalTrials.gov study NCT05532995. IPD Sharing: UNDECIDED. Countries: 4. Publications: 8.
Orbit Image Analysis: an open-source whole slide image analysis tool
Open the record for dataset details and reuse information.
Assets for "A Systematic Technology Review of General-Purpose Open-Source TOSCA Orchestrators"
<p>These datasets contain the results of a systematic technology review of general-purpose open-source TOSCA orchestrators that we conducted in order to support organizations in selecting a suitable TOSCA orchestrator: </p> <ul> <li>Definition of the TOSCA Orchestrator Classification Framework</li> <li>List of all identified TOSCA orchestrator </li> <li>Classification data of selected TOSCA orchestrators</li> </ul>
Supporting data to "Open-source, low-cost, in-situ turbidity sensor for river network monitoring"
<p>This folder contains the Supporting Dataset that is part of the Manuscript "Open-source, low-cost, in-situ turbidity sensor for river network monitoring."</p>
An open-source and easily replicable hardware for Electrical Impedance Tomography
<p>Supplementary materials of the paper.</p>
Raw data for Orostica et al "Open-Source Incubator for DNA Assembly Reactions"
<p>Raw data for the manuscript "Open-Source Incubator for DNA Assembly Reactions"</p>
Supplementary Website, Data, and Scripts for the Paper "Hierarchical and Hybrid Organizational Structures in Open-Source Software Projects: A Longitudinal Study"
<p>Supplementary website containing result plots and data, anonymized raw data, and scripts used to produce the results of the paper "Hierarchical and Hybrid Organizational Structures in Open-Source Software Projects: A Longitudinal Study".</p>
ScienceDex guides
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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.