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4,694 results for “data analysis”
Bayesian Analysis of Paleotsunami Sources: Data and Stochastic Simulations
<p>This repository contains the datasets utilized in the research titled “Tracing the Sources of Paleotsunamis Using Bayesian Frameworks.” Each dataset is integral to the analysis and reconstruction efforts undertaken in the study.</p> <p> </p> <p><strong>File Descriptions</strong></p> <p> </p> <p><strong>1. CorrectedShoreline_jogan_deposit_data.csv</strong></p> <p> </p> <p>This file contains paleotsunami data collected by Sugawara et al. The data has been corrected to account for the shoreline position at the time of the paleotsunami event.</p> <p> </p> <p><strong>Reference:</strong></p> <p>Sugawara, D., Goto, K., Imamura, F., Matsumoto, H., & Minoura, K. (2012). Assessing the magnitude of the 869 Jogan tsunami using sedimentary deposits: Prediction and consequence of the 2011 Tohoku-oki tsunami. <em>Sedimentary Geology, 282</em>, 14–26.</p> <p> </p> <p><strong>2. Stochastic_samples.zip</strong></p> <p> </p> <p>This archive contains the stochastic samples generated for the Japan Trench, utilizing the coupling distribution model from Loveless et al.</p> <p> </p> <p><strong>Reference:</strong></p> <p>Loveless, J. P., & Meade, B. J. (2011). Spatial correlation of interseismic coupling and coseismic rupture extent of the 2011 Mw = 9.0 Tohoku-oki earthquake. <em>Geophysical Research Letters, 38</em>.</p> <p> </p> <p><strong>3. Selected_Stochastic_Samples.zip</strong></p> <p> </p> <p>This file includes a reduced sample space derived from the original stochastic samples, specifically selected for statistical analysis.</p> <p> </p> <p><strong>4. Sendai_1961.zip</strong></p> <p> </p> <p>This dataset contains the reconstructed morphology of the Sendai plain as it appeared in 1961. The reconstruction is based on aerial photographs provided by the Geospatial Information Authority of Japan (GSI).</p>
Lemonade Creek, Yellowstone National Park, USA - Microbial Community Analysis - Cyanidiophyceae genome data for HGT analysis
<p>This dataset consists of 12 metagenome samples that were collected from one of three environments in Yellowstone National Park:</p> <ul> <li>4 samples (numbered 1, 2, 3, 4) are from the "CreekBiofilm" environment.</li> <li>4 samples (1, 2, 3, 4) are from the "Endolithic" environment.</li> <li>4 samples (1, 2, 3, 4) are from the "Soil" environment.</li> </ul> <p>We have found that there are two species of cyanidiophyceae present in these samples: one *Galdieria sulphuraria* (the `*Gsulp*` files) and one *Cyanidioschyzon merolae* (the `*Cmer*` files). For each of these species I extracted their contigs from the metagenome assembly if they had >=10% of their lengths covered by hits with >90% ID to the respective reference genome (i.e., contigs with >10% coverage of hits with >90% ID to a given reference genome). The majority of contigs have >90% hit coverage however, to prevent removal of contigs with novel sequences (arising via HGT or other processes), I used a lenient threshold of 10%. The naming of the files indicate which sample the contigs are from and which of the two cyanidiophyceae species they are putatively from. NOTE: that there are very few predicted proteins in the `YNP_CreekBiofilm_*_Gsulp*` files. This is because this environment is completely dominated by the other algal species and so we recovered very few contigs from this species from these environments.</p>
Silva, Harder et al. Detectability of runs of homozygosity is influenced by analysis parameters and population-specific demographic history Data
<p>Dataset used in the "Detectability of runs of homozygosity is influenced by analysis parameters and population-specific demographic history" paper by Silva, Harder et al.</p> <p>This dataset includes Fasta files for Simulated dataset and VCF files for both Empirical and Simulated datasets.</p>
Spreadsheet for analysis of illness-death model with aggregated data
<p>Spreadsheet for calculation of a recurrence equation and analysis of fixed points in the illness-death model.</p>
Data Analysis for Context- and sex-dependent links between sire sexual success and offspring pathogen resistance
<p>Data Analysis for "Context- and sex-dependent links between sire sexual success and offspring pathogen resistance"</p> <p>By Aijuan Liao and Tadeusz J. Kawecki</p>
Dataset for "Are data papers cited as research data? Preliminary analysis on interdisciplinary data paper citations"
<p>This is the dataset for the paper "Are data papers cited as research data? Preliminary analysis on interdisciplinary data paper citations" submitted to iConference 2025.</p>
Educational data collected from students - regarding the analysis of online activities in schools in Romania (during the Covid-19 pandemic, March 2020 - April 2020)
<p>The student questionnaire was designed with 20 questions. It was completed by 1,088 respondents and focuses on students' experiences related to online education. The collected data provides a broad perspective on various aspects of this, including access to technology, experiences with different platforms, perceptions of the advantages and disadvantages of this form of education, as well as direct feedback from students regarding their experiences. The full questionnaire can be accessed at: <a href="https://forms.gle/fhgzCUx1SDnxbCfZ6" target="_new" rel="noopener"><strong>https://forms.gle/fhgzCUx1SDnxbCfZ6</strong></a></p> <p>To protect the identity of the respondents and to obtain accurate responses, all data collected from teachers was anonymous. We did not collect any personal information whatsoever. This aspect was made clear to the respondents in the description of the questionnaire.</p>
Educational data collected from teachers - for the analysis of online activities in schools in Romania (during the Covid-19 pandemic, March 2020 - April 2020)
<p>The dataset comes from a questionnaire structured into 24 questions, which can be accessed at <a href="https://forms.gle/bUgYMfoNHh7r6ebs6" target="_new" rel="noopener">https://forms.gle/bUgYMfoNHh7r6ebs6</a>. This questionnaire was completed by 956 respondents and aims to analyze the online activities carried out during March - April 2020, being distributed to teachers.<br>Each question is designed to reveal different aspects of the experiences, skills, and perspectives of teaching staff regarding online teaching and learning.</p> <p>To protect the identity of the respondents and to obtain accurate responses, all data collected from teachers was anonymous. We did not collect any personal information whatsoever. This aspect was made clear to the respondents in the description of the questionnaire.</p>
Data Outputs: An analysis of proper nouns in Marian Keyes published novels 1995-2020.xlsx
<p>A data set analysing proper nouns in Marian Keyes' published novels 1995-2020 conducted for my Irish Research Council funded PhD thesis: </p> <ol> <li>Watermelon</li> <li>Lucy Sullivan is Getting Married</li> <li>Rachel's Holiday</li> <li>Last Chance Saloon</li> <li>Sushi for Beginners</li> <li>Angels</li> <li>The Other Side of the Story</li> <li>Anybody Out There?</li> <li>This Charming Man</li> <li>The Brightest Star in the Sky</li> <li>The Mystery of Mercy Close</li> <li>The Woman Who Stole My Life</li> <li>The Break</li> <li>Grown Ups</li> </ol> <p>The results are not statistically significant and therefore not incorporated into my final write up. </p> <p>The list of character names may be useful to incoroprate into a STOP list for anyone else seeking to analyse Keyes' novels via distant reading methods.</p>
Data accompanying "In silico analysis of the profilaggrin sequence indicates alterations in the stability, degradation route, and intracellular protein fate in filaggrin null mutation carriers" article.
<p>This research was supported by the National Science Centre, Poland, grant PRELUDIUM number 2021/41/N/NZ1/03473 to NS, National Science Centre, Poland, grant SONATA BIS number 2019/34/E/NZ6/00354 to DG-O, as well as POIR.04.04.00-00-21FA/16–00 grant, carried out within the First TEAM programme of the Foundation for Polish Science co-financed by the European Union under the European Regional Development Fund (awarded to DG-O). WP was supported by the National Science Centre, Poland, grant SONATA-BIS number 2021/42/E/NZ1/00190. SB is supported by a Wellcome Trust Senior Research Fellowship (220875/Z/20/Z).</p>
Sample WebAssembly Data Files for Reproducible Analysis and Visualization of iEEG (RAVE)
<p>The data was derived from the following work and packaged into WebAssemply via Emscripten. The modification includes removing large data files and only keep up with the minimal requirements.</p> <blockquote> <p>Magnotti, J. F., Wang, Z., & Beauchamp, M. S. (2020). RAVE: Comprehensive open-source software for reproducible analysis and visualization of intracranial EEG data. <em>NeuroImage</em>, <em>223</em>, 117341.</p> </blockquote> <p> </p>
Linear morphometric analysis data of lithic points from Lovedale, Free State, South Africa
<p>Linear morphometric analysis data of lithic points from the Middle Stone Age site of Lovedale and other Middle Stone Age localities in the Modder River basin, Free State, South Africa.</p>
Replication data for: Stations of the Publicum Portorium Illyrici are a Strong Predictor of the Mithraic Presence in the Danubian Provinces: Geographical Analysis of the Distribution of the Roman Cult of Mithras
<p>This repository serves as supplementary material for the article "Stations of the Publicum Portorium Illyrici are a Strong Predictor of the Mithraic Presence in the Danubian Provinces: Geographical Analysis of the Distribution of the Roman Cult of Mithras". This work was supported by the European Regional Development Fund project “Beyond Security: Role of Conflict in Resilience-Building” (reg. no.: CZ.02.01.01/00/22_008/0004595). The repository contains the following data:</p> <ol> <li>Dataset for the evidence of the Roman cult of Mithras as collected by Ales Chalupa for the Roman provinces of Raetia, Noricum, Dalmatia, Regio X, Dalmatia, Pannonia, Moesia, Thracia. File: Mithras_AC.geojson</li> <li>Geocoded Latin inscriptions collected from the LIST dataset (Vojtěch Kaše, Petra Heřmánková, & Adéla Sobotková. (2024). LIST (v1.2) [Data set]. Zenodo. <a href="https://doi.org/10.5281/zenodo.10473706" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.10473706</a>) mentioning the deities Mithras, Minerva, Jupiter, Jupiter Dolichenus, Asclepius, Apollo, Mercury, Silvanus, Isis, Hercules in a csv format. Filename format: ListdeitynameWKTv1_2.csv.</li> <li>Dictionary of noun forms for filtering deities Mithras, Minerva, Jupiter, Jupiter Dolichenus, Asclepius, Apollo, Mercury, Silvanus, Isis, Hercules in Latin inscriptions. File: deities_decline.csv</li> <li>Spatial proximity analysis measurements. WEST_GEO_DIST(km) lists distances from Portorium West stations (N=11) to their nearest cult proxy in kilometers in geographical space; WEST_NET_DIST(m) lists distances from Portorium West stations (N=11) to their nearest cult proxy in meters across the transportation network of Roman roads; EAST_GEO_DIST(km) and EAST_NET_DIST(m) follow the same rationale for stations in the Portorium East group (N=16); NORICUM_DIST_NET_30(m) lists distances from Roman settlements in the province Noricum (and in the distance of 30 kilometers beyond the borders of Noricum) to their nearest cult proxy and portorium stations across the transportation network of Roman roads in meters (N=53). File: Distances.xlsx</li> <li>Filtered Mithras_AC dataset with additional evidence from provinces neighboring Noricum for the purposes of correlation analysis. File: Mithras_AC_Noricum_neighbors.geojson</li> <li>Results of Spearman correlation analysis for NORICUM_DIST_NET_30(m). File: NORICUM_RES_NET_30.csv</li> <li>Geocoded Stations of the Publicum Portorium Illyrici. File: Portorium stations.csv</li> <li>Portorium stations divided by administrative segments and attributed with periods based on Sarkisjan's dissertation. Files: Portorium_West_period.csv; Portorium_East_period.csv</li> <li>Portorium members identified by inscriptions based on Sarkisjan's dissertation. File: Portorium_members.csv</li> <li>The closest Mithraic evidence from the Mithras_AC to Portorium West and East stations with a chronological description. Files: mithras_ac_west_closest_period.csv; mithras_ac_east_closest_period.csv</li> </ol>
EGP Mitochondrial Genome Analysis on Human Genome Diversity Project Whole-Genome Sequencing Data
<p><strong>Summary: </strong>This dataset consists of running EGP version 1.3 on whole-genome sequencing data from the HGDP. The link to EGP is here https://github.com/tycheleturner/ElGenomaPequeno.</p> <p><strong>Author: </strong>Tychele N. Turner, Ph.D.</p> <p><strong>Short Writeup: EGP version 1.3 on Simons Genome Diversity Project</strong>: Short-read WGS CRAM files were downloaded from the EMBL-EBI Public Data Globus Endpoint from the <code>/1000g/ftp/data_collections</code> directory. Post-download, the data was run through EGP version 1.3. The results are shown below:</p> <div> <table> <tbody> <tr> <td>Public Dataset</td> <td>EGP Result File Type</td> <td>MD5</td> </tr> <tr> <td>Human Genome Diversity Project</td> <td>Mitochondrial Genome Fasta Files for MEGA</td> <td>2b388c1fa446ecec70e33ea0471e06f8</td> </tr> <tr> <td>Human Genome Diversity Project</td> <td>Mitochondrial Genome MitoMaster Result File</td> <td>50b80ed32b1ae542c8967cc31986dd19</td> </tr> <tr> <td>Human Genome Diversity Project</td> <td>Mitochondrial Genome Variant Tables</td> <td>995f30b74c4bb094a674b1a994853246</td> </tr> <tr> <td>Human Genome Diversity Project</td> <td>Mitochondrial Genome Copy Number</td> <td>e79e61efab4c491fa2825b7d1853df58</td> </tr> </tbody> </table> </div> <div>Please note: I have found that with Zenodo you must use "Download All" for the copy number table to properly open.</div>
EGP Mitochondrial Genome Analysis on Simons Genome Diversity Project Whole-Genome Sequencing Data
<p><strong>Summary: </strong>This dataset consists of running EGP version 1.3 on whole-genome sequencing data from the SGDP. The link to EGP is here https://github.com/tycheleturner/ElGenomaPequeno.</p> <p><strong>Author: </strong>Tychele N. Turner, Ph.D.</p> <p><strong>Short Writeup: EGP version 1.3 on Simons Genome Diversity Project</strong>: Short-read WGS CRAM files were downloaded from the EMBL-EBI Public Data Globus Endpoint from the <code>/1000g/ftp/data_collections</code> directory. Post-download, the data was run through EGP version 1.3. The results are shown below:</p> <table> <tbody> <tr> <th>Public Dataset</th> <th>EGP Result File Type</th> <th>MD5</th> </tr> </tbody> <tbody> <tr> <td>Simons Genome Diversity Project</td> <td>Mitochondrial Genome Fasta Files for MEGA</td> <td>86b09553f80926c1c29c57000ec1a88f</td> </tr> <tr> <td>Simons Genome Diversity Project</td> <td>Mitochondrial Genome MitoMaster Result File</td> <td>010026d77bee81e7b8daf5836bd12da3</td> </tr> <tr> <td>Simons Genome Diversity Project</td> <td>Mitochondrial Genome Variant Tables</td> <td>f1ea3edf4a82b42f2028467fb3544dc4</td> </tr> <tr> <td>Simons Genome Diversity Project</td> <td>Mitochondrial Genome Copy Number</td> <td>4872eeb792c214ad49662e98e4b14620</td> </tr> </tbody> </table> <p>Please note: I have found that with Zenodo you must use "Download All" for the copy number table to properly open.</p>
EGP Mitochondrial Genome Analysis on 1000 Genomes Project 2504 Whole-Genome Sequencing Data
<p><strong>Summary: </strong>This dataset consists of running EGP version 1.3 on whole-genome sequencing data from the 1000 Genomes Project 2504 Dataset. The link to EGP is here https://github.com/tycheleturner/ElGenomaPequeno.</p> <p><strong>Author: </strong>Tychele N. Turner, Ph.D.</p> <p><strong>Short Writeup: EGP version 1.3 on 1000 Genomes Project 2504 Dataset</strong>: Short-read WGS CRAM files were downloaded through the paths present in this file <code>https://ftp.1000genomes.ebi.ac.uk/vol1/ftp/data_collections/1000G_2504_high_coverage/1000G_2504_high_coverage.sequence.index</code>. Please note that the index files are there as well. You just have to append a <code>.crai</code>. The results are shown below:</p> <div> <table> <tbody> <tr> <td>Public Dataset</td> <td>EGP Result File Type</td> <td>MD5</td> </tr> <tr> <td>1000 Genomes Project 2504</td> <td>Mitochondrial Genome Fasta Files for MEGA</td> <td>dbf39d6ff0e4389b900f9d985f2e6c64</td> </tr> <tr> <td>1000 Genomes Project 2504</td> <td>Mitochondrial Genome MitoMaster Result File</td> <td>4d53ef60ec16f3e4b566c45fdf0fb977</td> </tr> <tr> <td>1000 Genomes Project 2504</td> <td>Mitochondrial Genome Variant Tables</td> <td>16925b546051d37cce27df8ec57ccc5e</td> </tr> <tr> <td>1000 Genomes Project 2504</td> <td>Mitochondrial Genome Copy Number</td> <td>365c1b360ea327795d981356064658a6</td> </tr> </tbody> </table> <p>Please note: I have found that with Zenodo you must use "Download All" for the copy number table to properly open.</p> </div>
EGP Mitochondrial Genome Analysis on 1000 Genomes Project 698 Related Whole-Genome Sequencing Data
<div> <p><strong>Summary: </strong>This dataset consists of running EGP version 1.3 on whole-genome sequencing data from the 1000 Genomes Project 698 Related Dataset. The link to EGP is here https://github.com/tycheleturner/ElGenomaPequeno.</p> <p><strong>Author: </strong>Tychele N. Turner, Ph.D.</p> <p><strong>Short Writeup: EGP version 1.3 on 1000 Genomes Project 698 Related Dataset</strong>: Short-read WGS CRAM files were downloaded through the paths present in this file <code>https://ftp-trace.ncbi.nlm.nih.gov/1000genomes/ftp/1000G_2504_high_coverage/additional_698_related/1000G_698_related_high_coverage.sequence.index</code>. The results are shown below:</p> <div> <table> <tbody> <tr> <td>Public Dataset</td> <td>EGP Result File Type</td> <td>MD5</td> </tr> <tr> <td>1000 Genomes Project 698 Related</td> <td>Mitochondrial Genome Fasta Files for MEGA</td> <td>322038d61b4da2e937b32410613c3532</td> </tr> <tr> <td>1000 Genomes Project 698 Related</td> <td>Mitochondrial Genome MitoMaster Result File</td> <td>36c782c12245100478903f7fa191a402</td> </tr> <tr> <td>1000 Genomes Project 698 Related</td> <td>Mitochondrial Genome Variant Tables</td> <td>68b2a51361ffae4e7ad9d420b8becd38</td> </tr> <tr> <td>1000 Genomes Project 698 Related</td> <td>Mitochondrial Genome Copy Number</td> <td>1e83c8ae132b0a7ef33b090757b29063</td> </tr> </tbody> </table> <p>Please note: I have found that with Zenodo you must use "Download All" for the copy number table to properly open.</p> </div> <p> </p> </div> <h2> </h2>
EGP Mitochondrial Genome Analysis on Gambian Genome Variation Project Whole-Genome Sequencing Data
<p><strong>Summary: </strong>This dataset consists of running EGP version 1.3 on whole-genome sequencing data from the GGVP. The link to EGP is here https://github.com/tycheleturner/ElGenomaPequeno.</p> <p><strong>Author: </strong>Tychele N. Turner, Ph.D.</p> <p><strong>Short Writeup: EGP version 1.3 on Gambian Genome Variation Project</strong>: Short-read WGS CRAM files were downloaded from the EMBL-EBI Public Data Globus Endpoint from the <code>/1000g/ftp/data_collections</code> directory. Post-download, the data was run through EGP version 1.3. The results are shown below:</p> <div> <table> <tbody> <tr> <td>Public Dataset</td> <td>EGP Result File Type</td> <td>MD5</td> </tr> <tr> <td>Gambian Genome Variation Project</td> <td>Mitochondrial Genome Fasta Files for MEGA</td> <td>d21e1e91e8b4c00627171fae79a1f54d</td> </tr> <tr> <td>Gambian Genome Variation Project</td> <td>Mitochondrial Genome MitoMaster Result File</td> <td>b359d1068d4f84f7746d1ebde82df29a</td> </tr> <tr> <td>Gambian Genome Variation Project</td> <td>Mitochondrial Genome Variant Tables</td> <td>ee2b93aa93d2177d92ec0f8f308b43ed</td> </tr> <tr> <td>Gambian Genome Variation Project</td> <td>Mitochondrial Genome Copy Number</td> <td>fda509ba1d2bf33fd2d6b77b92e76c03</td> </tr> </tbody> </table> <p>Please note: I have found that with Zenodo you must use "Download All" for the copy number table to properly open.</p> </div>
EGP Mitochondrial Genome Analysis on GIAB Whole-Genome Sequencing Data
<div> <p><strong>Summary: </strong>This dataset consists of running EGP version 1.3 on whole-genome sequencing data from the GIAB. The link to EGP is here https://github.com/tycheleturner/ElGenomaPequeno.</p> <p><strong>Author: </strong>Tychele N. Turner, Ph.D.</p> <p><strong>Short Writeup: EGP version 1.3 on GIAB</strong>: Short-read WGS CRAM files were downloaded through the paths present in this file <code>https://raw.githubusercontent.com/genome-in-a-bottle/giab_data_indexes/refs/heads/master/AshkenazimTrio/alignment.index.AJtrio_Illumina300X_wgs_novoalign_GRCh37_GRCh38_NHGRI_07282015</code></p> <div> <table> <tbody> <tr> <td>Public Dataset</td> <td>EGP Result File Type</td> <td>MD5</td> </tr> <tr> <td>GIAB</td> <td>Mitochondrial Genome Fasta Files for MEGA</td> <td>5eac6ec7d36307aa401fd5441b38a506</td> </tr> <tr> <td>GIAB</td> <td>Mitochondrial Genome MitoMaster Result File</td> <td>1151ae74c8e515f4f39bef816bb55d6a</td> </tr> <tr> <td>GIAB</td> <td>Mitochondrial Genome Variant Tables</td> <td>b3e342fe9827df2e399f5685f84cd4dc</td> </tr> <tr> <td>GIAB</td> <td>Mitochondrial Genome Copy Number</td> <td>3c45c19f76f71b3ccaad155565ead5e4</td> </tr> </tbody> </table> </div> <div>Please note: I have found that with Zenodo you must use "Download All" for the copy number table to properly open.</div> <p> </p> <p> </p> </div> <h2> </h2>
Neutron activation analysis data of pottery from Pachacamac and other sites in the Lurín Valley, Peru
<p>Neutron activation analysis data of pottery from Pachacamac and other sites in the Lurín Valley, Peru</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.