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3,673 results for “practices”
On the Need to Monitor Continuous Integration Practices: An Empirical Study
<p>This repository contains all the artifacts and data related to the <strong>On the Need to Monitor Continuous Integration Practices: An Empirical Study</strong>. The folder structure and their entailments are as follows:</p> <ul> <li><strong>data</strong>: Contains .sql files with the dataset collected during the study, which includes all project information retrieved from GitHub. A README.txt file inside the folder explains how to restore the dataset.</li> <li><strong>document_analysis</strong>: Includes the analysis files for specific research questions: <ul> <li>RQ1 subdirectory: Contains the pull request (PR) comments dataset and an Excel file with the analysis data for Research Question 1.</li> <li>RQ3 subdirectory: Contains documentation from CI services and third-party tools analyzed in Research Question 3, along with an Excel file summarizing the analysis data.</li> </ul> </li> <li><strong>scripts</strong>: Provides the R scripts used for data analysis and chart generation.</li> <li><strong>survey</strong>: Includes the collected survey responses and a template of the survey sent to developers.</li> </ul> <p><br>The total size of the repository when decompressed is approximately <strong>8.14 GB</strong>.</p>
Spectrum, time course, stages, and a proposal for the diagnosis of histamine intolerance in general practice: A Nonrandomized, Quasi-Experimental Study - Supplementary material 1 and supplementary material 2 for "Spectrum, time course, stages, and a proposal for the diagnosis of histamine intolerance in general practice: A Nonrandomized, Quasi-Experimental Study"
<p><span>File name: Supplementary material 1. All data.xls</span></p> <p><span>Title of data: Questionnaire, all patients’ answers. Number of patient-doctor meetings with upper respiratory symptoms in primary care</span></p> <p><span>Description of data: The administered questionnaires (first/initial and second/post-diet). All patients’ answers. Number of patient-doctor meetings 01.09.2021-27.09.2024. with upper respiratory symptoms in primary care.</span></p> <p><span> </span></p> <p><span>File name: Supplementary material 2. Educational material and proposed questionnaire.doc</span></p> <p><span>Title of data: Proposed questionnaire for histamine intolerance in primary care. Educational material for patients with histamine intolerance</span></p> <p><span>Description of data: Proposed questionnaire for HIT in primary care. Educational material for patients to help establish </span><span>cause-and-effect relationships between their meals and their experienced symptoms. Food-symptom diary.<span><br></span></span></p>
Dataset on Metallurgical Practices at Dhaskalio, Keros: SEM-EDS Analysis of Slag and Prills
<p>The dataset includes the chemical composition of slag phases, as well as copper and sulphide prills observed in the microstructures of slag samples from the Early Cycladic complex of Dhaskalio, Keros, obtained through SEM-EDS analysis. This data offers new insights into the range of metallurgical activities conducted at the site.</p> <p>Evidence of smelting has been documented within the settlement itself, indicating the production of unalloyed copper and arsenical copper enriched with nickel and lead. These activities were closely connected to pyrotechnological operations at the nearby smelting site on the Kavos Promontory. Together, Dhaskalio and Kavos represent the only known primary metal production site of the Early Cycladic period outside the metalliferous western Cyclades, which hosted large-scale smelting activities. Secondary metalworking, such as refining and melting arsenical copper, is well-represented in Dhaskalio's material record. Limited evidence of tin-working suggests a focus on recycling practices, likely of tin-bronze scrap metal.</p>
Exemplary landscape planning results using different qualities of LU/LC data to derive implications for practical planning.
<p>This Dataset consist of two GIS Shape files showing examples of common landscape planning activities, namely the an assessment of the climate protection function and planning towards locating environmental protection measures using different data basis. Using overlay operation it is possible to use descriptive statistics to assess uncertainties and inconsistencies between different land use / land cover data sets and highlight their implications for practical planning.</p> <p>Once published, the results of such analysis can be seen in the related publication "Uncertainties in land use data may have substantial effects on environmental planning recommendations: a plea for careful consideration. Submitted to PLOS ONE."</p>
Current clinical practice in adapted automated peritoneal dialysis (aAPD) – a prospective, non-interventional study
<p>Dataset for the publication "Current clinical practice in adapted automated peritoneal dialysis (aAPD) – a prospective, non-interventional study"</p>
Data from: Different management practices influence growth of small plants in species-rich hay meadows through shading
<p>Data from: Different management practices influence growth of small plants in species-rich hay meadows through shading, published in Applied Vegetation Science. Photosynthetically active radiation (PAR) and Dry Matter Yield (DMY)</p>
Pelt biting as a practical indicator of social and environment stress in farmed red deer
<p>Data sets used in the analyses of paper title "Pelt biting as a practical indicator of social and environment stress in farmed red deer"</p>
dataset of Delphi consensus on good practices for the use of technology fto support developmental dyslexia
<p>The dataset reports the answers collected during phase 2 and 3 of the Delphi survey conducted among Italian experts to define good practices for the use of technologies to support children with Developmental Dyslexia.All answers are expressed on a scale from 1 = strongly disagree to 5 = strongly agree.</p>
Data of "Using current research information systems to investigate data acquisition and data sharing practices of computer scientists"
<p>This study describes a methodology where departmental academic publications are used to analyse the ways in which computer scientists share research data.</p> <p>Without sufficient information about researchers’ data sharing, there is a risk of mismatching FAIR data service efforts with the needs of researchers. This study describes a methodology where departmental academic publications are used to analyse the ways in which computer scientists share research data. The advancement of FAIR data would benefit from novel methodologies that reliably examine data sharing at the level of multidisciplinary research organisations. Studies that use CRIS publication data to elicit insight into researchers’ data sharing may therefore be a valuable addition to the current interview and questionnaire methodologies.</p> <p><strong>Data was collected from the following sources:</strong></p> <p>All journal articles published by researchers in the computer science department of the case study’s university during 2019 were extracted for scrutiny from the current research information system. For these 193 articles, a coding framework was developed to capture the key elements of acquiring and sharing research data. Article DOIs are included in the research data.</p> <p>The scientific journal articles and theirs DOIs are used in this study for the purpose of academic expression.</p> <p>The raw data is compiled into a single CSV file. Rows represent specific articles and columns are the values of the data points described below. Author names and affiliations were not collected and are not included in the data set. </p> <p> </p> <p>The following data points were used in the analysis:</p> <p><strong>Data points</strong></p> <ul> <li><strong>Main study types</strong></li> <li>Literature-based study (e.g. literature reviews, archive studies, studies of social media)</li> <li>yes/no</li> <li>Novel computational methods (e.g. algorithms, simulations, software)</li> <li>yes/no</li> <li>Interaction studies (e.g, interviews, surveys, tasks, ethnography)</li> <li>yes/no</li> <li>Intervention studies (e.g., EEG, MRI, clinical trials)</li> <li>yes/no</li> <li>Measurement studies (e.g. astronomy, weather, acoustics, chemistry)</li> <li>yes/no</li> <li>Life sciences (e.g. “omics”, ecology)</li> <li>yes/no</li> <li><strong>Data acquisition</strong></li> <li>Article presents a data availability statement</li> <li>yes/no</li> <li>Article does not utilise data</li> <li>yes/no</li> <li>Original data was collected</li> <li>yes/no</li> <li>Open data from prior studies were used</li> <li>yes/no</li> <li>Open data from public authorities, companies, universities and associations</li> <li>yes/no</li> <li><strong>Data sharing</strong></li> <li>Article does not use original data</li> <li>yes/no</li> <li>Data of the article is not available for reuse</li> <li>yes/no</li> <li>Article used openly available data</li> <li>yes/no</li> <li>Authors agree to share their data to interested readers</li> <li>yes/no</li> <li>Article shared data (or part of) as supplementary material</li> <li>yes/no</li> <li>Article shared data (or part of) via open deposition</li> <li>yes/no</li> <li>Article deposited code or used open code</li> <li>yes/no</li> </ul>
Enhancing research informatics core user satisfaction through agile practices
<p><strong>Objective:</strong> The Huntsman Cancer Institute (HCI) Research Informatics Shared Resource (RISR), a software and database development core facility, sought to address a lack of published operational best practices for research informatics cores. It aimed to use those insights to enhance effectiveness after an increase in team size from 20 to 31 full-time equivalents coincided with a reduction in user satisfaction.</p> <p><strong>Materials and Methods:</strong> RISR migrated from a water-scrum-fall model of software development to agile software development practices, which emphasize iteration and collaboration. RISR's agile implementation emphasizes the product owner role, which is responsible for user engagement and may be particularly valuable in software development that requires close engagement with users like in science.</p> <p><strong>Results: </strong>All RISR's software development teams implemented agile practices in early 2020. All project teams are led by a product owner who serves as the voice of the user on the development team. Annual user survey scores for service quality and turnaround time recorded nine months after implementation increased by 17% and 11%, respectively.</p> <p><strong>Discussion:</strong> RISR is illustrative of the increasing size of research informatics cores and the need to identify best practices for maintaining high effectiveness. Agile practices may address concerns about the fit of software engineering practices in science. The study had one time point after implementing agile practices and one site, limiting its generalizability.</p> <p><strong>Conclusion:</strong> Agile software development may substantially increase a research informatics core facility's effectiveness and should be studied further as a potential best practice for how such cores are operated.</p>
Data for: Theoretical and practical considerations when using retroelement insertions to estimate species trees in the anomaly zone
<p>A potential shortcoming of concatenation methods for species tree estimation is their failure to account for incomplete lineage sorting. Coalescent methods address this problem but make various assumptions that, if violated, can result in worse performance than concatenation. Given the challenges of analyzing DNA sequences with both concatenation and coalescent methods, retroelement insertions (RIs) have emerged as powerful phylogenomic markers for species tree estimation. Here, we show that two recently proposed quartet-based methods, SDPquartets and ASTRAL_BP, are statistically consistent estimators of the unrooted species tree topology under the coalescent when RIs follow a neutral infinite-sites model of mutation and the expected number of new RIs per generation is constant across the species tree. The accuracy of these (and other) methods for inferring species trees from RIs has yet to be assessed on simulated data sets, where the true species tree topology is known. Therefore, we evaluated eight methods given RIs simulated from four model species trees, all of which have short branches and at least three of which are in the anomaly zone. In our simulation study, ASTRAL_BP and SDPquartets always recovered the correct species tree topology when given a sufficiently large number of RIs, as predicted. A distance-based method (ASTRID_BP) and Dollo parsimony also performed well in recovering the species tree topology. In contrast, unordered, polymorphism, and Camin-Sokal parsimony (as well as an approach based on MDC) typically fail to recover the correct species tree topology in anomaly zone situations with more than four ingroup taxa. Of the methods studied, only ASTRAL_BP automatically estimates internal branch lengths (in coalescent units) and support values (i.e., local posterior probabilities). We examined the accuracy of branch length estimation, finding that estimated lengths were accurate for short branches but upwardly biased otherwise. This led us to derive the maximum likelihood (branch length) estimate for when RIs are given as input instead of binary gene trees; this corrected formula produced accurate estimates of branch lengths in our simulation study, provided that a sufficiently large number of RIs were given as input. Lastly, we evaluated the impact of data quantity on species tree estimation by repeating the above experiments with input sizes varying from 100 to 100,000 parsimony-informative RIs. We found that, when given just 1,000 parsimony-informative RIs as input, ASTRAL_BP successfully reconstructed major clades (i.e clades separated by branches >0.3 CUs) with high support and identified rapid radiations (i.e., shorter connected branches), although not their precise branching order. The local posterior probability was effective for controlling false positive branches in these scenarios.</p>
Best Practices mit dem DataCite-Metadatenschema 4.4
<p>Video recording of the presentation "Best Practices mit dem DataCite-Metadatenschema 4.4" held by Felix Burger on November 19, 2021 during a metadata webinar hosted by DOI Service Austria.</p> <p>The presentation outlines new features of the DataCite Metadata Schema 4.4 such as new "ResourceTypeGeneral" options for publications, "classificationCode", the new "RelationType" "IsPublishedIn" and "relatedItem" by using three fictive use cases.</p>
An Evaluation of Self-reported Level of Entrustment across the First Year of Clinical Practice [dataset]
<p><strong>This file contains the data files from each of the four surveys (Times 1 to 4), and the questionnaires used to collect the data at Time 1, and Times 2-3.</strong></p> <p><strong>Background.</strong> Newly graduated medical students often report that they lack the skills required to care for patients, and feel unprepared for clinical practice. However, little is known about when, and if, they acquire these skills in practice.</p> <p><strong>Objective.</strong> To assess self-reported level of entrustment in, and frequency of performance of, the seven Entrustable Professional Activities (EPAs) comprising the EPA framework for interns in Ireland. EPAs describe discrete activities that are essential to a particular profession.</p> <p><strong>Methods</strong>. Self-report survey data were collected from doctors in the Republic of Ireland during their first year of clinical practice at four different time points during 2020/21.</p> <p><strong>Results</strong>. Response rates to the survey varied from 73.3% (126/172) at Time 1 to 25.6% (44/172) at Time 4. After 3 months, the respondents reported that they could execute all of the EPAs, inclusive of 12 essential procedural skills, with indirect supervision. As the year progressed there was an increase in the proportion of respondents reporting that they performed the EPAs at least once a week. However, the proportion of respondents performing five of the essential procedural skills (e.g. nasogastric tube insertion) remained low across all time points.</p> <p><strong>Conclusion</strong>. Consideration should be given as to how to better prepare medical students to execute these EPAs, how the interns can be better supported during the first quarter of internship. The findings from this research are positive. However, there is an urgent need to carry out formal assessments of entrustability, rather than relying on self-report.</p>
Tissue-barriers-on-chip: paving the way for a reproducible practice in drug testing
<p>Supplementary material to the article</p> <p>Tissue-barriers-on-chip: paving the way for a reproducible practice in drug testing.</p> <p>Animation of the transfer- concept</p> <p>Cultivation on chip after transfer</p> <p>Cultivation on chip after transfer without air bubble measures</p> <p> </p> <p> </p>
Simulated data for a practice of gamete binning
<p>This dataset includes simulated data for practicing the pipeline of gamete binning to achieve haplotype-resolved genome assembly.</p>
Does automated reassesment & relearning improve math performance in comparison to traditional computer adaptive practice alone?
<p>Scholarly interest in the notion on how students learn and retain learned skills is vast. Cognitive psychologists have recommended various techniques used to increase retention. One technique, spaced retrieval practice, involves extending opportunities to retrieve course content beyond a customarily short window following the initial learning process. Our preregistered counterbalanced randomised control trial investigated whether an online tutor with an Automated Reassessment and Relearning System (ARRS) improves retention for individual students across specific mathematical skills. While our findings revealed a null result, in part due to the small number of participants, we feel this experimental design could be used in future studies with more favourable results. Additionally, we feel ARRS could be used to support low prior knowledge students and Students With Interrupted or Limited Formal Education (SLIFE), a growing population in schools that is often overlooked in academic research.</p>
Simulation files to accompany the manuscript "Two-dimensional basin-scale seismic site effects in the Kitimat Valley, British Columbia, Canada: A practical example of using a fast hybrid FE/BE method"
<p>Simulation files to accompany the two-dimensional basin-scale seismic site effects investigation in the Kitimat valley, located in the northern coastal region of British Columbia, Canada.</p>
Research compendium for 'Practical and technical aspects for the 3D scanning of lithic artefacts using micro-computed tomography techniques and laser light scanners for subsequent geometric morphometric analysis. Introducing the StyroStone protocol'
<p><strong>Abstract:</strong></p> <p>Here, we present a new method to scan a large number of lithic artefacts using three-dimensional (3D) scanning technology. Despite the rising use of high-resolution 3D surface scanners in archaeological sciences, no virtual studies have focused on the 3D digitization and analysis of small lithic implements such as bladelets, microblades, and microflakes. This is mostly due to difficulties in creating reliable 3D meshes of these artefacts resulting from several inherent features (i.e., size, translucency, and acute edge angles), which compromise the efficiency of structured light or laser scanners and photogrammetry. Our new protocol <em>StyroStone</em> addresses this problem by proposing a step-by-step procedure relying on the use of micro-computed tomographic technology, which is able to capture the 3D shape of small lithic implements in high detail. We tested a system that enables us to scan hundreds of artefacts together at once within a single scanning session lasting a few hours. As also bigger lithic artefacts (i.e., blades) are present in our sample, this protocol is complemented by a short guide on how to effectively scan such artefacts using a structured light scanner (Artec Space Spider). Furthermore, we estimate the accuracy of our scanning protocol using principal component analysis of 3D Procrustes shape coordinates on a sample of meshes of bladelets obtained with both micro-computed tomography and another scanning device (i.e., Artec Micro). A comprehensive review on the use of 3D geometric morphometrics in lithic analysis and other computer-based approaches is provided in the introductory chapter to show the advantages of improving 3D scanning protocols and increasing the digitization of our prehistoric human heritage.</p> <p><strong>Content List:</strong></p> <ul> <li><strong>S1. </strong>Step-by-step protocol entitled ‘StyroStone: A protocol for scanning and extracting three-dimensional meshes of stone artefacts using Micro-CT scanners’. Also available on protocols.io (dx.doi.org/10.17504/protocols.io.bzbfp2jn);</li> <li><strong>S2. </strong>Dataset with all raw semilandmark coordinate data (in .xlsx format) used in the validation study;</li> <li><strong>S3. </strong>AGMT3D project. The file “Validation Protocol-MorphoProject.mat” can be used to open the project in the software AGMT3D;</li> <li><strong>S4. </strong>Dataset in .csv format of the principal component score data of the validation study;</li> <li><strong>S5.</strong> R script used to create Figure 2 using the R package ggplot2;</li> <li><strong>S6. </strong>3D models of the experimental bladelets obtained with the Micro-CT scanner used in the validation study. Both .ply and .wrl formats are provided;</li> <li><strong>S7. </strong>3D models of the experimental bladelets obtained with the Artec Micro scanner used in the validation study. Both .ply and .wrl formats are provided.</li> </ul>
DATASET associated with the research of students' intrinsic motivation during practical work in physics
<p>This dataset is associated with the research of students' intrinsic motivation during practical work in physics.</p> <p><strong>Legend for specific columns</strong>:</p> <ul> <li><em>gender</em>: 1 = men; 2 = women</li> <li><em>intention to study STEM</em>: 1 = the highest intention; 7 = the lowest intention</li> <li><em>self-reported diligence</em>: 1 = the highest diligence; 7 = the lowest diligence</li> <li><em>the remaining columns (items 1-23)</em>: 1 = the highest feeling of the measured quality; 7 = the lowest feeling of the measured quality*</li> </ul> <p>* By measured quality we mean one of the following dimensions: interest/enjoyment (abbr. <strong>int</strong>), effort/impotance (<strong>eff</strong>), pressire/tension (<strong>ten</strong>), value/usefulness (<strong>val</strong>) and perceived competence (<strong>pc</strong>).</p> <p><strong>Note</strong>: Reverse-worded items have been already taken into account, the score in these tems has been calculated.</p>
How is Transient Behavior Addressed in Practice? Insights from a Series of Expert Interviews - Supplementary Material
<p>This is the supplementary material of the following publication:</p> <p>Samuel Beck, Sebastian Frank, Alireza Hakamian, André van Hoorn. 2022. How is Transient Behavior Addressed in Practice? Insights from a Series of Expert Interviews. In <em>Companion of the 2022 ACM/SPEC International Conference on Performance Engineering (ICPE ’22 Companion)</em>, April 9–13, 2022, Bejing, China. ACM, New York, NY, USA, 9 pages. https://doi.org/10.1145/3491204.3527483.</p> <p>The supplementary material contains the questions that were asked during the interviews and the five transcripts that were produced as a result of the interviews. The interviews were conducted in German and the transcripts have not been translated into English.</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.