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Figure 10 in Historical review of the computerization of the MNHN Fish Collection and its collaboration with FishBase
Figure 10. – Literature associated with the MNHN Fish Collection: management in GICM and SpeMuse and linked with FishBase.
Figure 9 in Historical review of the computerization of the MNHN Fish Collection and its collaboration with FishBase
Figure 9. – Osteology artefacts in the MNHN Fish Collection: management in GICM and link with OsteoBase and FishBase.
Figure 6 in Historical review of the computerization of the MNHN Fish Collection and its collaboration with FishBase
Figure 6. – Number of identifications by year in the MNHN Fish Collection, and percentage of total identifications by the top ten taxonomists' names.
Figure 2. – Computerisation process from 1983 in Historical review of the computerization of the MNHN Fish Collection and its collaboration with FishBase
Figure 2. – Computerisation process from 1983 to 1996 including several steps: 1: Checking the jar, the collection cards, and the ledgers to prepare data in handwritten forms; 2: Data entry using the interface DOC.
Figure 8 in Historical review of the computerization of the MNHN Fish Collection and its collaboration with FishBase
Figure 8. – The structure of the pictures database (upper left) and the website link from the MNHN médiatheque (boxed in red) to the GICIM Fish collection website to FishBase since 2001.
Figure 1 in Historical review of the computerization of the MNHN Fish Collection and its collaboration with FishBase
Figure 1. – Cumulative number of records (= lots) in GICIM (MNHN Fish Collection Database) between 1996 and 2021.
Figure 7 in Historical review of the computerization of the MNHN Fish Collection and its collaboration with FishBase
Figure 7. – Loans and requests database structure (upper left); family composition of requests with number of specimens and the proportion of total requests (upper right); and analysis of loans and requests over time since 1992 from the MNHN fish collection (lower panel).
Figure 2 in The onset of a collaboration between FishBase and aquariums: the example of the Muséum-Aquarium of Nancy
Figure 2. – An example of a preserved specimen of Chaetodontoplus conspi-conspicillatus in the MAN collection.
Figure 1 in The onset of a collaboration between FishBase and aquariums: the example of the Muséum-Aquarium of Nancy
Figure 1. – Examples of pictures of the MAN uploaded into FishBase. Screenshots of the FishBase website showing MAN's photos: on the left, the tetra Micralestes stormsi which was not illustrated and on the right the photo of the holotype of the scorpionfish Rhinopias eschmeyeri.
A Tool for Collaborative Consistency Checking During Modeling (dataset)
<div>This dataset contains a few snapshots as well as the jar files for the tools (server and client).</div> <div> </div> <div>It also contains a image displayng the metamodel representation of the streamlined language (Metamodel-sUML) which is used to define the models created by our sUML modeler.</div> <div> </div> <div> </div> <div> </div> <div><strong>Running the tools:</strong></div> <div> </div> <div><strong><a href="https://isse.jku.at/designspace/index.php/Abstract_Rule_Language">Requirements</a></strong>: </div> <div>Windows 10/11</div> <div>JDK 21 or above</div> <div> </div> <div><strong>How to run the server and add rules:</strong></div> <ul> <li>Run the DesignSpace-Server</li> <li>On the top menu, click Consistency > Rule Editor </li> <li>To add a new rule, select a Language (sUMLv3) and an instance type (e.g., Class)</li> <li>Add a name for the rule</li> <li>Add a definition for the rule (use the ARL language (<a href="https://isse.jku.at/designspace/index.php/Abstract_Rule_Language">https://isse.jku.at/designspace/index.php/Abstract_Rule_Language</a>) and the properties of the UML metamodel</li> <li>Always click validate (if there are erros in the rule defintioj, check the log)</li> <li>If no erros are found, the rule is created.</li> </ul> <div><strong>Run the modeler tools:</strong></div> <ul> <li>When running an instance of the sUML-Modeler, you need to select a user (currently there are four users, more can be added using the DesignSpace server)</li> <li>To connect multiple tools, select different users (selecting the same user will close the previously connected tool as each user can only connect once)</li> <li>Always create a root model before adding other diagrams</li> <li>For changes to be sent to the server, select DesignSpace > Commit from the tool menu</li> <li>The option DesignSpace > Update will pull changes (in case they exist)</li> <li>To enable the highlighting of inconsistencies, select Validate > Display Inconsistencies</li> </ul> <div> </div> <div> </div> <div><strong>Sample rules:</strong></div> <div> </div> <div>Instance Type: class</div> <div>Name: A class must have unique operations</div> <div> </div> <div>self.operations->forAll(o1, o2 | o1 <> o2 implies o1.name <> o2.name)</div> <div> </div> <div>Instance Type: class</div> <div>Name: A class must have unique attributes</div> <div> </div> <div>self.attributes->forAll(a1, a2 | a1 <> a2 implies a1.name <> a2.name)</div> <p> </p>
A network of countries collaborating on learning analytics research
<p>A network of countries collaborating on learning analytics research. It includes original research articles published in Scopus Database up to 16 January 2018. The file is an un-directed Graphml network of 76 countries. It can be opened in Social Network Analysis applications such as Gephi, or Igraph R package.</p>
Data set for Plos One Article "Force sharing and other collaborative strategies in a dyadic force perception task"
<p>Data set for Plos One Article :</p> <p>Tatti, F., Baud-Bovy G. (2018) "Force sharing and other collaborative strategies in a dyadic force perception task". doi: 10.1371/journal.pone.0192754</p> <p>This study investigates how people might interact to extract information from the forces experienced while holding an object together. More specifically, the dyads (i.e. pairs formed two persons) participating to the study had to identify the direction of a small force applied to a jointly held object by a haptic device. This study included a condition where each participant responded independently and another one where the two participants had to agree upon a single negotiated response.</p> <p>The dataset (data.csv) contains the force produced by the haptic device and the average and standard deviation of the interaction force for all trials together with the responses of the participants. We also included the initial and final position of the haptic device and total distance traveled for each trial.</p> <p>The data are in comma separated text format and its description in a PDF document (readme.pdf).</p>
Data associated with "A collaborative filtering based approach to biomedical knowledge discovery"
<p>This is the data set associated with the publication: "A collaborative filtering based approach to biomedical knowledge discovery" published in Bioinformatics.</p> <p>The data are sets of cooccurrences of biomedical terms extracted from published abstracts and full text articles. The cooccurrences are then represented in sparse matrix form. There are three different splits of this data denoted by the prefix number on the files.</p> <p>1. All - All cooccurrences combined in a single file</p> <p>2. Training/Validation - All cooccurrences in publications before 2010 in training, all novel cooccurrences in publication in 2010 go in validation</p> <p>3. Training+Validation/Test - All cooccurrences in publication upto and including 2010 in training+validation. All novel cooccurrences after 2010 in year by year increments and also all combined together</p> <p> </p> <p>Furthermore there are subset files which are used in some experiments to deal with the computational cost of evaluating the full set. The associated cuids.txt file containing a link between the row/column in the matrix with the UMLS Metathesaurus CUIDs. Hence the first row of cuids.txt matches up to the 0th row/column in the matrix. Note that the matrix is square and symmetric. This work was done with UMLS Metathesaurus 2016AB.</p>
International Collaboration Analysis Universidade de Sao Paulo - USP June 2018 SciVal (Elsevier)
<p>Levantamento realizado na Plataforma <a href="http://www.scival.com/">SciVal</a> (Elsevier) revela tendência geral de melhora nos principais indicadores relacionados à produção científica da Universidade de São Paulo. O levantamento foi realizado entre os dias 14 e 20 de junho de 2018 na plataforma SciVal, com dados da base Scopus atualizados até o dia 1º de junho de 2018 e é um retrato desse momento da produção científica indexada da Universidade de São Paulo – USP no período de 2013 a junho de 2018. </p> <p>DUDZIAK, E.A. <strong>Internacionalização e impacto da produção científica da USP: </strong>tendências positivas no horizonte.<strong> - Internationalization and impact of USP's scientific production: positive trends on the horizon - </strong>São Paulo: SIBiUSP, June 2018.<strong> </strong>Disponível em: <<a href="https://www.sibi.usp.br/?p=24247">https://www.sibi.usp.br/?p=24247</a>> </p> <p>Survey carried out in the SciVal Platform (Elsevier) reveals a general trend of improvement in the main indicators related to the scientific production of the University of São Paulo. The survey was conducted between June 14 and 20, 2018 on the SciVal platform, with data from the Scopus database updated until June 1, 2018 and is a portrait of this moment of the indexed scientific production of the University of São Paulo - USP from 2013 to June 2018.</p> <p> </p>
The Collaborative Organization of Knowledge: Data Set
<p>Wikipedia is an ongoing endeavor to create a free encyclopedia through an open computer-mediated collaborative effort. How does Wikipedia grow and maintain its coverage? This page contains supporing material relevant to a publication that examines this question.</p> <ul> <li>Diomidis Spinellis and Panagiotis Louridas. The collaborative organization of knowledge. Communications of the ACM, 51(8):68–73, August 2008. (<a href="http://dx.doi.org/10.1145/1378704.1378720">doi:10.1145/1378704.1378720</a>)</li> </ul> <p>In the above paper, a longitudinal study of Wikipedia's evolution shows that although Wikipedia's scope is increasing, its coverage is not deteriorating. This can be explained by the fact that referring to an non-existing entry typically leads to the establishment of an article for it. Wikipedia's evolution also demonstrates the creation of a large real world scale-free graph through a combination of incremental growth and preferential attachment.</p> <p>Though this data set you can download the processed results. The file starts with a header giving various attributes of the processed data set.</p> <pre>% Number of bins: 72 % Total revisions: 28247658 % Maximum revisions: 28273 (George W. Bush) % Maximum reverts: 9218 (George W. Bush) % Number of moves: 81380 % Total pages: 1898139 % Revisions from IP addresses: 8518913 % Total contributors: 230130 % Maximum different contributors: 2539 (George W. Bush) % Redirected pages: 631567 % Restricted pages: 2441 % Maximum number of contained references: 17577 (List of all three letter acrony ms) % Pages with at least one revert: 211704 % Total number of reverts across all pages: 1147151 % Total time between reverts: 54524346346 % Moved pages: 80332 </pre> <p>Next comes one line of data for each one of Wikipedia's entries. Here is an example.</p> <pre>A (musical note):1128386876:Mailer diablo:1130566991:MrD9:10:7:18:0:0:0:0:0:0:0: 0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0:0: 0:0:0:0:0:0:0:0:0:0:0:1:1:1:2:2:2:2:2:2:2:2:2:2:2:2:E </pre> <p>Each line contains the following fields.</p> <ul> <li>Entry name</li> <li>Time of first definition (in seconds since Unix epoch)</li> <li>Name of the contributor who first defined the entry</li> <li>Time of first reference (in seconds since Unix epoch)</li> <li>Name of the contributor who first referenced the entry</li> <li>Number of references</li> <li>Number of contributors</li> <li>Number of revisions</li> <li>Number of reverts</li> <li>For each one of the time period bins (72 in this file) the number of references to the entry</li> <li>The letter "E"</li> </ul> <p>The fields are colon-separated. Colons in the input data are converted to an underscore.</p> <p>Finally, come lines summarizing the data set's characteristics for each time period. Here is an example.</p> <pre>2001-07-01 4851 0 27106 15129 13458 531 </pre> <p>Each line contains the following fields.</p> <ul> <li>Start date of this period</li> <li>Number of entries</li> <li>Number of entries that are stubs</li> <li>Number of references</li> <li>Number of referenced articles</li> <li>Number of undefined entries</li> <li>Number of active contributors in this period</li> </ul>
iPRES2015 Collaborative Notes
<p>This is the <em>iPRES Amplified</em> content of the 12th International Conference on Digital Preservation (iPRES), 2nd - 6th November 2015 in Chapel Hill, USA.</p> <p>This includes all content made available as part of the iPRES2015 Google Drive ( <a href="https://drive.google.com/drive/folders/0BzatfUW9_tT4UDQzeVN0dlNiMTQ">https://drive.google.com/drive/folders/0BzatfUW9_tT4UDQzeVN0dlNiMTQ</a> ) which contained information [empty templates with no takers were not archived here]. Collaborative note taking was facilitated through Google Docs, those documents also still resides at the above mentioned link. The document deposited here is considered version 1.0, captured on April 15th 2019.</p> <p><strong>General Information:</strong></p> <ul> <li>ipres2015_general_3 Nov (9_00 - 10_00) - Spotlight_ This Year's Noteworthy Progress and Achievements in Digital Preservation</li> <li>ipres2015_general_4 Nov (10_30 - 12_00) - Preservation Storage Community Discussion</li> <li>ipres2015_general_Get a Room_ for Organizational Assessment</li> </ul> <p><strong>Panels:</strong></p> <ul> <li>iPRES2015_Panels_3 Nov (10_30 - 12_00) - Good, Better, Best_ Examining the Range and Rationales of Institutional Data Curation</li> <li>iPRES2015_Panels_3 Nov (15_00 - 16_30) - Preserving Born-Digital News</li> <li>iPRES2015_Panels_4 Nov (13_00 - 14_30) - Long-Term Preservation Strategies & Architecture_ Views from Implementers</li> <li>iPRES2015_Panels_4 Nov (13_00 - 14_30) - Preservation of Research Data for Reuse</li> </ul> <p><strong>Sessions:</strong></p> <ul> <li>iPRES2015_Sessions_3 Nov (10_30 - 12_00) Frameworks for Digital Preservation</li> <li>iPRES2015_Sessions_3 Nov (10_30 - 12_00) Institutional Opportunities and Challenges</li> <li>iPRES2015_Sessions_3 Nov (13_00 - 14_30) Infrastructure Opportunities and Challenges</li> <li>iPRES2015_Sessions_3 Nov (13_00 - 14_30) Preservation Strategies and Workflows</li> <li>iPRES2015_Sessions_4 Nov (10_30 - 12_00) Digital Preservation Frameworks, Strategies, and Workflows</li> <li>iPRES2015_Sessions_4 Nov (10_30 - 12_00) Dimensions of Digital Preservation</li> </ul> <p><strong>Workshop and Tutorials:</strong></p> <ul> <li>iPRES2015_workshops_tutorials_2 Nov (09_00 - 15_00) - Fedora 4 Tutorial</li> <li>iPRES2015_workshops_tutorials_2 Nov (09_00 - 17_00) - From Theory to Practice_ Using ISO 16363</li> <li>iPRES2015_workshops_tutorials_2 Nov (09_00 - 17_00) - Roles & Responsibilities for Sustaining Open Source Platforms & Tools</li> <li>iPRES2015_workshops_tutorials_2 Nov (09_00 - 17_00) - Testing the Proposed METS 2</li> <li>iPRES2015_workshops_tutorials_6 Nov (09_00 - 17_00) - Curating Research Assets and Data Using Lifecycle Education</li> <li>iPRES2015_workshops_tutorials_6 Nov (09_00 - 17_00) - Using Open-Source Tools to Fulfill Digital Preservation Requirements</li> <li>iPRES2015_workshops_tutorials_Policy and Documentation Clinic</li> </ul> <ul> </ul> <p><strong>iPRES Flash Drive content:</strong></p> <ul> <li>ipres2015_USB-drive_abrams_foundational-framework</li> <li>ipres2015_USB-drive_altman_advancing-the-evidence-base</li> <li>ipres2015_USB-drive_boutard_participatory-digital-repositories</li> <li>ipres2015_USB-drive_brunelle_archiving-deferred-representations</li> <li>ipres2015_USB-drive_caron_experiment-document-and-decide</li> <li>ipres2015_USB-drive_currier_copyright-and-the-digitization-of-state-government-documents</li> <li>ipres2015_USB-drive_darcy-project-chrysalis</li> <li>ipres2015_USB-drive_duretec_benchmarks-for-digital-preservation-tools</li> <li>ipres2015_USB-drive_faniel_preservation-of-research-data</li> <li>ipres2015_USB-drive_mccain-preserving-born-digital-news</li> <li>ipres2015_USB-drive_molinaro_long-term-preservation-strategies</li> <li>ipres2015_USB-drive_posters-demos</li> <li>ipres2015_USB-drive_program-at-a-glance</li> <li>ipres2015_USB-drive_rice_good-better-best</li> <li>ipres2015_USB-drive_smith_engaging-content-creators</li> </ul> <p><strong>Additionally, the content of two iPRES2015 Amplifeid tricider pages were stored as PDFs:</strong></p> <ul> <li>ipres2015_tricider_watch_next_year</li> <li>ipres2015_tricider_significant_developments_past_year</li> </ul>
Brain Invaders Solo versus Collaboration: Multi-User P300-based Brain-Computer Interface Dataset (bi2014b)
<p><strong>Summary:</strong></p> <p>This dataset contains electroencephalographic (EEG) recordings of 38 subjects playing in pair to the multi-user version of a visual P300-based Brain-Computer Interface (BCI) named <em>Brain </em><em>Invaders </em>(Congedo et al., 2011). The interface uses the oddball paradigm on a grid of 36 symbols (1 Target, 35 Non-Target) that are flashed pseudo-randomly to elicit a P300 response, an evoked-potential appearing about 300ms after stimulation onset. EEG data were recorded using 32 active wet electrodes per subjects (total: 64 electrodes) during three randomized conditions (Solo1, Solo2, Collaboration). The experiment took place at GIPSA-lab, Grenoble, France, in 2014. A full description of the experiment is available at <a href="https://hal.archives-ouvertes.fr/hal-02173958">https://hal.archives-ouvertes.fr/hal-02173958</a>. Python code for manipulating the data is available at <a href="https://github.com/plcrodrigues/py.BI.EEG.2014b-GIPSA">https://github.com/plcrodrigues/py.BI.EEG.2014b-GIPSA</a>. The ID of this dataset is <em>bi2014b.</em></p> <p> </p> <p><strong>Full description of the experiment and dataset: </strong><a href="https://hal.archives-ouvertes.fr/hal-02173958">https://hal.archives-ouvertes.fr/hal-02173958</a></p> <p> </p> <p><strong><em>Investigators</em>:</strong> Eng. Louis Korczowski, B. Sc. Ekaterina Ostaschenko</p> <p> </p> <p><strong><em>Technical</em></strong> <strong><em>Support</em></strong>: Eng. Anton Andreev, Eng. Grégoire Cattan, Eng. Pedro. L. C. Rodrigues, M. Sc. Violette Gautheret</p> <p> </p> <p><strong><em>Scientific Supervisor:</em></strong> Ph.D. Marco Congedo</p> <p> </p> <p><strong>ID of the dataset: </strong><em>bi2014b</em></p>
Dataset for "Validation of a Prognostic Staging for Metastatic Uveal Melanoma: A Collaborative Study of the European Ophthalmic Oncology Group"
<p>Raw data corresponding to the paper entitled: "<strong>Validation of a Prognostic Staging for Metastatic Uveal Melanoma: A Collaborative Study of the European Ophthalmic Oncology Group</strong><strong>" </strong>published in <em>Am. J. Ophthalmol.</em> 2016 Aug;168:217-226 by Kivelä <em>et al.</em></p>
Figure 2 in A call for collaboration to create the European Atlas of Soil Fauna
Figure 2. Example map created from the data stored in the Edaphobase data warehouse. The yellow triangles depict the distribution of the Diplopod genera Glomeris (A) and Geoglomeris (B). Please note that the absence of points does not necessarily mean that the genus is absent, but rather means that the genus has either not been recorded (yet) or it has been recorded but relevant data have not been included in the Edaphobase data warehouse.
Figure 1 in A call for collaboration to create the European Atlas of Soil Fauna
Figure 1. Map depicting study sites of Earthworms found in Ecoregions of Central, and Central West Europe from the literature review by Tsiafouli et al. (in prep.). The data of these sites are those we aim to collect for constructing the maps of the Atlas. Please note that the list of Earthworm study sites located up to now is not exclusive.
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.