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4,694 results for “data analysis”
Interstage single ventricle heart disease infants show dysregulation in multiple metabolic pathways: targeted metabolomics analysis - Data
<p>The data in this Zenodo entry corresponds to the data used to produce the results in <a href="https://www.jacc.org/doi/full/10.1016/j.jacadv.2022.100169">https://www.jacc.org/doi/full/10.1016/j.jacadv.2022.100169</a>. The zipped folder contains three files</p> <ul> <li>Metabolite Data.csv - The meatobilte measurements for all the samples</li> <li>Clinical Data.csv - Values for the clinical variables</li> <li>Clinical Data Descriptions.csv - More in depth explanation of clinical variables as well as possible values of the variables</li> </ul> <p><span>This study was supported by the American Heart Association (AHA</span><span>20CDA35310498 and AHA18IPA34170070) and the National Institutes </span><span>of Health (NIH/NCATS Colorado CTSA, No. UL1 TR001082 and NIH/</span><span>NHLBI K23HL12363</span></p>
Experimental data, analysis scripts and simulations for "Emittance preservation in a plasma-wakefield accelerator"
<p>This dataset presents the experimental data, the analysis scripts and the accompanying simulations for the article <em>"Emittance preservation in a plasma-wakefield accelerator"</em> by C. A. Lindstrøm <em>et al</em>. [<a href="https://doi.org/10.1038/s41467-024-50320-1">Nat. Commun. 15, 6097 (2024)</a>].</p> <p>The data was collected at the FLASHForward facility at DESY (Hamburg, Germany). Simulations were performed using <a href="https://doi.org/10.5281/zenodo.5639467" target="_blank" rel="noopener">HiPACE++ v23.11</a>.</p> <p><strong>Folder structure:</strong></p> <ul> <li>Folders containing experimental data: <ul> <li>Folder <code>1A_DATA__OBJECT_PLANE_SCANS</code> contains all data from object-plane scans (emittance measurements).</li> <li>Folder <code>1B_DATA__SPECTRUM_MEASUREMENT</code> contains all data from energy-spectrum measurements.</li> <li>Folder <code>1C_DATA__TWO_BPM_TOMOGRAPHY</code> contains all data from two-BPM tomography measurements.</li> <li>Folder <code>1D_DATA__BEAM_RECONSTRUCTION</code> contains all data from beam-reconstruction measurements (including longitudinal-phase-space measurements).</li> <li>Folder <code>1E_DATA__PLASMA_DENSITY</code> contains all data from plasma-density measurements (spectral-line broadening).</li> </ul> </li> <li>Folder <code>2_ANALYSIS</code> contains all the data-analysis scripts, required for plotting experimental figures.</li> <li>Folder <code>3_SIMULATION</code> contains all simulation scripts, required for generating 6D beam phase spaces and plotting simulation figures.</li> <li>Folder <code>4_FIGURES</code> contains all figure-plotting scripts (17 figures total).</li> </ul> <p><br><strong>Dataset structure:</strong></p> <ul> <li>Each dataset is identified by a 5-digit number (e.g., <code>14275</code>)</li> <li>Metadata and beam-synchronous scalar values are contained in a <code>.mat</code> dataset file (e.g., <code>14275.mat</code>).</li> <li>The dataset file has the following fields: <ul> <li><code>.metadata</code> containing all the generic metadata</li> <li><code>.state</code> containing all the <em>non-beam-synchronous</em> data (once per dataset; magnet settings etc.)</li> <li><code>.scalars</code> containing all the <em>beam-synchronous scalar</em> data (once per shot; BPM readings etc.)</li> <li><code>.vectors</code> containing all the <em>beam-synchronous vector</em> data (once per shot; scope traces etc.)</li> <li><code>.images</code> containing all the <em>beam-synchronous image</em> data, with relative URLs (once per shot; spectrometer images etc.)</li> </ul> </li> <li>The corresponding images (linked from the <code>.mat</code> file) are contained in the <code>images</code> folder, sorted by scan step.</li> </ul> <p><br><strong>Instructions for plotting all figures*:</strong></p> <ol> <li>Change directory to <code>4_FIGURES/</code></li> <li>In MATLAB, run <code>plot_all_figures();</code></li> <li>The 4 main figures and 13 supplementary figures will be plotted</li> </ol> <p><strong>Instructions for generating the 6D phase space for simulations*:</strong></p> <ol> <li>Change directory to<code> 3_SIMULATION/input_beam_generation/</code></li> <li>In MATLAB, run <code>generate_beam_and_plasma();</code></li> <li>The full analysis will up to several minutes (the files are stored in the <code>_files</code> folder)</li> </ol> <p><strong>Instructions for performing HiPACE++ simulations*:</strong></p> <ol> <li>Change directory to e.g. <code>3_SIMULATION/simulations/experimental_cell_50mm/</code></li> <li>The HiPACE++ input file is called <code>input_file</code></li> <li>This file refers to the plasma profile (<code>plasma_short.csv</code>) and beam files (<code>beam.h5</code> and <code>driver.h5</code>) found in <code>3_SIMULATION/run_notebooks/inputs/</code></li> </ol> <p><strong>Instructions for re-performing all the analysis*:</strong></p> <ol> <li>Change directory to <code>2_ANALYSIS/</code></li> <li>In MATLAB, run <code>run_all_analyses();</code></li> <li>The full analysis will up to several hours (the files are stored in various <code>_files</code> folders)</li> </ol> <p><em>* The scripts use UNIX system calls and are only compatible with Linux and Mac, but not Windows.</em></p>
Supporting Online Data for 'Timber trade in the United States of America 1870 to 2017. A socio-metabolic analysis'
<p>This data file (.xlsx) contains all data used to create tables and figures of the study "Timber trade in the United States of America 1870 to 2017. A socio-metabolic analysis". Main article is available under: https://doi.org/10.1080/01615440.2024.2316039</p>
Supplementary material: Negative valence in Obsessive-Compulsive Disorder: A worldwide mega-analysis of task-based functional neuroimaging data of the ENIGMA-OCD consortium
<p>The ridge plots attached here accompany the supplement to the manuscript <em>Negative valence in Obsessive-Compulsive Disorder: A worldwide mega-analysis of task-based functional neuroimaging data of the ENIGMA-OCD consortium</em> (Dzinalija et al., 2024)<em>. </em>These are full results of Figures 1, 2C, and 3C of the manuscript and Figures S3, S5, S7 and S9 of the supplement depicting whole-brain Bayesian multilevel models run using the Regional Bayesian Analysis toolbox (RBA; Chen et al., 2019). Whole-brain analyses were parcelated into the Schaefer-Yeo 7-network 200-parcel cortical atlas (Schaefer et al., 2018) and the Melbourne 32-region subcortical atlas (Tian et al., 2020). Results are presented according to contrast of interests: [Negative > Neutral], [OCD > Neutral], [Threat > Neutral], and [OCD > Threat], and effects of interest: [Diagnosis = OCD or HC], [MED = medication], [AO = age of onset], [YBOCS = OCD severity], and [Intercept = task effect]. </p> <p>P+ values denote the probability that there is increased brain activation in a given region of the Schaefer 200-parcel 7-network cortical atlas and Melbourne 32-region subcortical atlas. We used the guidelines proposed by Chen et al. (2019) to infer credibility of evidence, namely taking a positive posterior probability (P+) of <0.10 or >0.90 as indication of moderate evidence and, <0.05 or >0.95 or <0.025 or >0.975 as strong or very strong evidence, respectively. To interpret the pairwise comparisons presented as Group1-vs-Group2, posterior distributions to the right of the green no-effect line represent regions in which individuals in Group 1 show credible evidence for higher activation than individuals in Group 2. Regions with posterior distributions to the left of this line show credible evidence for higher activity in Group 2 than in Group 1. (Darker) red color represents regions in which individuals in Group 1 show moderate-to-very-strong evidence for higher activation than Group 2. (Darker) blue color represents regions in which Group 2 show moderate-to-very-strong evidence for higher activation than Group 1. Grey color represents regions in which there is no strong evidence of a difference between Group 1 and Group 2. Schaefer-Yeo 200-parcel atlas name abbreviations can be retrieved <a href="https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/Parcellations">via this link.</a></p>
OSHDB - OpenStreetMap History Data Analysis
<p>A high-performance framework for spatio-temporal data analysis of OpenStreetMap full-history data. Developed by <a href="https://heigit.org">HeiGIT</a> as part of the <a href="https://ohsome.org/">ohsome project</a>.</p> <p><em>Code is hosted on github: <a href="https://github.com/giscience/oshdb">https://github.com/giscience/oshdb</a>.</em></p> <p>The OSHDB allows to investigate the evolution of the amount of data and the contributions to the OpenStreetMap project. It combines easy access to the historical OSM data with high querying performance. Use cases of the OSHDB include data quality analysis, computing of aggregated data statistics and OSM data extraction. The main functionality of the OSHDB is explained in the <a href="https://github.com/GIScience/oshdb/blob/master/documentation/first-steps/README.md">first steps tutorial</a>.</p> <p><strong>OpenStreetMap History Data</strong></p> <p><a href="https://www.openstreetmap.org/">OpenStreetMap</a> contains a large variety of geographic data, differing widely in scale and feature type. OSM contains everything from single points of interests to whole country borders, from concrete things like buildings up to more abstract concepts such as turn restrictions. OSM also offers metadata about the <a href="https://wiki.openstreetmap.org/wiki/Planet.osm/full">history</a> and the modifications that are made to the data, which can be analyzed in a multitude of ways.</p> <p>Because of it's size and variety, possibilities of working with OSM history data are limited and there exists a lack of an easy-to-use analysis software. A goal of the OSHDB is to make OSM data more accessible to researchers, data journalists, community members and other interested people.</p> <p><strong>Central Concepts</strong></p> <p>The OSHDB is designed to be appropriate for a large spectrum of potential use cases and is therefore built around the following central ideas and design goals:</p> <ul> <li><em>Lossless Information</em>: The full OSM history data set should be stored and be queryable by the OSHDB, including errorneous or partially incomplete data.</li> <li><em>Simple, Generic API</em>: Writing queries with the OSHDB should be simple and intuitive, while at the same time flexbile and generic to allow a wide variety of analysis queries.</li> <li><em>High Performance</em>: The OSM history data set is large and thus requires efficiency in the way the data is stored and in the way it can be accessed and processed.</li> <li><em>Local and Distributed Deployment</em>: Analysis queries should scale well from data explorations of small regions up to global studies of the complete OSM data set.</li> </ul> <p>The OSHDB splits data storage and computations. It is then possible to use the <a href="https://en.wikipedia.org/wiki/MapReduce">MapReduce</a> programming model to analyse the data in parallel and optionally also on distributed databases. A central idea behind this concept is to bring the code to the data.</p>
Data and analysis code for a toxin induction study on two species of Dinophysis dinoflagellates
<h3>General description</h3> <p>This repository contains the datasets, analysis code and output generated and used in the manuscript "Effects of copepod chemical cues on intra- and extracellular toxins in two species of <em>Dinophysis</em>", which has been published as a research article in Harmful Algae (https://doi.org/10.1016/j.hal.2024.102793).</p> <h3>Files</h3> <p><strong>HRMS_data_Dinophysis_induction_experiment.zip </strong>contains the source high-resolution mass-spectroscopy endometabolomics data in open file formats.</p> <p><strong>Put_annot_sign_affect_feat_metabol_data.xlsx</strong> (corresponds to <strong>Supplementary spreadsheet 1</strong> in the main manuscript) contains putative annotations of significantly affected features from the metabolomics data, for each <em>Dinophysis </em>species (<em>D.</em> <em>sacculus </em>and <em>D. acuminata</em>) and each mode of ionization. Notably, results obtained from GNPS (Global Natural Products Social Molecular Networking, <a href="https://gnps.ucsd.edu/" target="_blank" rel="noopener noreferrer">https://gnps.ucsd.edu/</a>), and SIRIUS (<a href="https://bio.informatik.uni-jena.de/sirius/" target="_blank" rel="noopener noreferrer">https://bio.informatik.uni-jena.de/sirius/</a>) were mentionned. When available, MS/MS spectra were also provided. </p> <p><strong>Tabl_sign_affect_feat.xlsx</strong> (corresponds to <strong>Supplementary spreadsheet 3</strong> in the main manuscript) contains tables of significantly affected features (ANOVA, Tukey’s post hoc test, adjusted p-value cut-offs of 0.001 or 0.01) from the metabolomics data, for each <em>Dinophysis </em>species (<em>sacculus </em>and <em>acuminata</em>) and each mode of ionization. A visual representation (heatmaps) of these significant fetures are available as Figs S3-S6 in the supplementary information of the main mauscript. </p> <p><strong>Toxin_analysis_code_output.Rmd</strong> is the R-markdown file that produces the interactive analysis output output (<strong>Toxin_analysis_code_output.html</strong>, corresponds to <strong>Supplementary code & output </strong>in the main manuscript) of the toxin analysis, and uses the datasets <strong>Toxin_analysis_data.csv</strong>,<strong> pca_score_sacculus.csv</strong>,<strong> </strong>and<strong> pca_score_acuminata.csv</strong> source datasets to perform the statistical analyses and generate figures (details for each dataset below).</p> <p><strong>Toxin_analysis_data.csv</strong> (corresponds to <strong>Supplementary spreadsheet 2</strong> in the main manuscript) contains the main data used to statistically analyse the toxin and growth dynamics of both <em>Dinophysis</em> species in response to different grazer treatments, and to produce the majority of the figures in the main manuscript (Figs. 2-6) and supplementary information (Figs. S1-S2). </p> <p><strong>pca_score_sacculus.csv</strong> & <strong>pca_score_acuminata.csv</strong> contain the scores of the first two principal components of the PCA performed on LC-HRMS derived metabolomic profiles of <em>D. sacculus </em>and <em>D. acuminata</em> respectively, in both positive and negative ion mode. These are used to produce PCA score plots (Fig. 6 in the main manuscript and Fig. S2 in the supplementary information).</p> <p><strong>custom.css</strong> is a custom html style sheet file that formats the <strong>Toxin_analysis_code_output.html</strong> to display scrollable tables correctly. It is used by <strong>Toxin_analysis_code_output.Rmd </strong>and is necessary for true reproduction of the output (<strong>.html</strong>) file.</p>
CLDF Dataset derived from the Bahnaric data in Sidwell's "Austroasiatic dataset for phylogenetic analysis" from 2015
<p>Cite the source of the dataset as:</p> <blockquote> <p>Sidwell, Paul. 2015. Austroasiatic dataset for phylogenetic analysis: 2015 version. Mon-Khmer Studies (Notes, Reviews, Data-Papers) 44. lxviii-ccclvii.</p> </blockquote>
Data and Statistical analysis for: "Predator in the pool? A quantitative evaluation of non-indexed open access journals in aquaculture research"
<p>Data and Statistical analysis for: "Predator in the pool? A quantitative evaluation of non-indexed open access journals in aquaculture research" published in <em>Frontiers in Marine Science</em></p>
Raw data for "Sparse periodicity-based auditory features explain human performance in a spatial multi-talker auditory scene analysis task"
<p>Raw data for the simulation study " Sparse periodicity-based auditory features explain human performance in a spatial multi-talker auditory scene analysis task" [1].</p> <p>[1] Josupeit, A., Schoenmaker, E., van de Par, S., & Hohmann, V. (2018). Sparse periodicity‐based auditory features explain human performance in a spatial multitalker auditory scene analysis task. <em>European Journal of Neuroscience</em>, https://doi.org/10.1111/ejn.13981.</p>
An Automatic Neuroimaging Infrastructure For Synthesis and Analysis of Structural MRI Data
<p>We have designed, implemented and distributed a fully automatic neuroimaging infrastructure for the synthesis and analysis of structural magnetic resonance imaging (MRI) data. The framework provides a concrete environment for the quantitative validation of various methods for the analysis of brain asymmetries, for comparisons of methods and measures of brain shape asymmetry, and possibly for clarifying contradicting neuroimaging findings of brain lateralizations.</p> <p>See <a href="https://sites.google.com/site/brainmorphorg/home">https://sites.google.com/site/brainmorphorg/home </a></p> <p>and </p> <p>A. Pepe, I. Dinov, and J. Tohka . An Automatic Framework for Quantitative Validation of Voxel Based Morphometry Measures of Anatomical Brain Asymmetry. <a href="http://dx.doi.org/10.1016/j.neuroimage.2014.06.029">NeuroImage , 100: 444 - 459, 2014</a><a href="https://doi.org/10.1016/j.neuroimage.2014.06.029"> </a></p> <p>for more information. </p>
Carbon sequestration in riparian forests: a global meta-analysis data set
<p>Data collected for a global meta-analysis of riparian forest biomass and soil carbon stocks. Includes studies estimating the carbon stored in the soil or standing live and dead woody vegetation, or the total biomass of woody vegetation in plots described as "riparian" or "floodplain". Also includes soil carbon metrics for plots considered to be "baseline" plots paired with a riparian plot. Excludes studies focused solely on depressional or tidal wetlands, plots lacking woody vegetation, greenhouse experiments, or those that measured only the biomass or carbon content of individual plants.</p> <p>The data file includes DOIs for all studies included (where available), study area coordinates, descriptions of study plots, vegetation age and soil texture (if known), reported values for woody biomass, biomass carbon stock, soil bulk density, soil carbon concentration, soil carbon stock, and/or soil sampling depth. All field descriptions are provided in the accompanying metadata file.</p>
All-sky information content analysis for novel passive microwave instruments - data
<p>This dataset is the underlying data for the article:</p> <p>Grützun, V., S. A. Buehler, L. Kluft, M. Brath, J. Mendrok, and P. Eriksson (in press, 2018), All-sky Information Content Analysis for Novel Passive Microwave Instruments in the Range from 23.8 GHz up to 874.4 GHz, Atmos. Meas. Tech., doi:10.5194/amt-2017-377. </p> <p>Please refer to that article for a description of the scientific background of the data and to the attached README file for a technical documentation. </p> <p>Contact: Verena Grützun, verena.gruetzun@uni-hamburg.de<br> </p>
Data archive for Pepper, Bateson and Nettle, 'Telomeres as integrative markers of exposure to stress and adversity: A systematic review and meta-analysis'
<p>Data archive for the paper 'Telomeres as integrative markers of exposure to stress and adversity: A systematic review and meta-analysis' by Gillian Pepper, Melissa Bateson and Daniel Nettle. This version was uploaded in July 2018 after peer-review in the journal Royal Society Open Science. Compared to earlier version, it incorporates some minor error correction to the dataset, and reflects the revised analyses we performed after peer review. </p> <p>Our protocol and recording guide, which were preregistered on the Open Science Framework in 2016, are also included here, as is our PRISMA diagram.</p> <p>The data file 'unprocessed data' contains the data as extracted from the literature, with associations shown both as provided in the original papers, and converted to correlation coefficients. The algorithms for converting all the different associations to correlation coefficients are described in the flowchart and implemented in the R script 'effect conversion algorithms.r'.</p> <p>The data file 'processed data.csv' is the dataset analysed in the paper. Compared to 'unprocessed data.csv', it excludes: associations from studies of non-human animals; duplicate associations; a small number of associations from studies of medical treatments; and associations considered subparts or subscales of other associations. These exclusions are outlined in Methods section of the paper. In addition, in the processed data file, all correlations are aligned in direction so as to make them comparable (variable 'ValencedEffect'); and all associations are assigned to broad and fine categories.The script 'unprocessed to processed.r' makes the processed data file from the unprocessed one, or you can simply work from the processed one directly. </p> <p>The R script 'telomere metanalysis script RSOS REVISED.r' reproduces the analyses found in the paper.</p> <p>This version of the archive (July 17 2018) contains one small correction in the data files compared to all earlier versions. </p>
Dataset for: Exploring the experiences of academic libraries with research data management: a meta-ethnographic analysis of qualitative studies
<p><strong>Overview</strong></p> <p>This dataset contains the raw data for the manusript:<br> Perrier L, Blondal E, MacDonald H. Exploring the experiences of academic libraries with research data management: a meta-ethnographic analysis of qualitative studies. 2018; 40(3-4): 173-183. doi: 10.1016/j.lisr.2018.08.002</p> <p>Full-text available at: <a href="https://doi.org/10.1016/j.lisr.2018.08.002">https://doi.org/10.1016/j.lisr.2018.08.002</a> </p> <p><strong>Data and Documentation Files</strong></p> <p>Five files make up the dataset:</p> <ol> <li>Data Dictionary: RDMMetaEthnography_DataDictionary_v1.pdf</li> <li>Data Abstraction Sheet: RDMMetaEthnography_StudyCharacteristics.csv</li> <li>Data Abstraction Sheet: RDMMetaEthnography_ParticipantCharacteristics.csv</li> <li>Data Abstraction Sheet: RDMMetaEthnography_Outcomes.csv</li> <li>Data Abstraction Sheet: RDMMetaEthnography_COREQ,csv</li> </ol> <p>Contact: Laure Perrier: <a href="https://orcid.org/0000-0001-9941-7129">orcid.org/0000-0001-9941-7129</a></p>
Data from A functional transcriptomics analysis in the relict marsupial Dromiciops gliroides reveals adaptive regulation of protective functions during hibernation
<p>This dataset contains files with the differentially expressed genes, raw counts, DESeq2 analyses and assembled transcriptome of D. gliroides. This information is linked to the manuscript published in Molecular Ecology.</p>
Data and analysis supplement for: Functional imagery training versus motivational interviewing for weight loss: a randomised controlled trial of brief individual interventions for overweight and obesity.
<p>This submission provides the data and code for analyses reported in our publication.</p>
Derived data and analysis code accompanying Deines et al. 2019, Environmental Research Letters
<p>This codebase accompanies the paper:</p> <p>Deines, JM, AD Kendall, JJ Butler, Jr., & DW Hyndman. 2019. Quantifying irrigation adaptation strategies in response to stakeholder-driven groundwater management in the US High Plains Aquifer. Environmental Research Letters. DOI: <a href="https://doi.org/10.1088/1748-9326/aafe39">https://doi.org/10.1088/1748-9326/aafe39</a></p> <p>Data and code at time of publication.</p>
Data package for modeling the journey of Colonel William Leake in the southern Mani Peninsula, Greece, using least-cost analysis
<p>Data used to model Colonel William Leake's journey in the southern Mani Peninsula, Greece, in the year 1805. Leake's journey is described in the book, <em>Travels in the Morea: Volume I </em>(Leake 1830, pp. 233-321). The data may be used to calculate least-cost paths between the places where Leake stopped, taking into consideration the contemporary path network and calculating cost in time based on Tobler's hiking function and the Modified Tobler function. A paper interpreting these data, 'Reconstructing Historical Journeys with Least-Cost Analysis: Colonel William Leake in the Mani Peninsula, Greece,' is published in <em>Journal of Archaeological Science: Reports</em> and can be accessed here: <a href="http://doi.org/10.1016/j.jasrep.2019.01.014">https://doi.org/10.1016/j.jasrep.2019.01.014</a>. The article pre-print can be accessed here: <a href="https://works.bepress.com/rebecca-seifried/11/">https://works.bepress.com/rebecca-seifried/11/</a>.</p> <p>Dr. Rebecca M. Seifried mapped the pre-modern paths as part of a PhD dissertation completed in 2016 through the Department of Anthropology at the University of Illinois at Chicago, entitled 'Community Organization and Imperial Expansion in a Rural Landscape: The Mani Peninsula, Greece (AD 1000-1821)' (<a href="http://hdl.handle.net/10027/21274">https://hdl.handle.net/10027/21274</a>). Fieldwork was conducted in 2014 and 2016 under the auspices of the 5th Ephorate of Byzantine Antiquities in Sparta and in collaboration with the Diros Project, an archaeological survey and excavation co-directed by Dr. Giorgos Papathanassopoulos and Dr. Anastasia Papathanasiou through the Ephorate of Palaeoanthropology & Speleology of Southern Greece. The remaining datasets were created in collaboration with Dr. Chelsea A.M. Gardner as part of the 'CART-ography Project: Cataloguing Ancient Routes and Travels in the Mani Peninsula,' whose goal is to catalogue the historic accounts of travelers to Mani and to model their routes throughout the peninsula.</p> <p>This research was funded by the National Science Foundation (BCS-1346694), Marie Sklodowska-Curie Actions (H2020-MSCA-IF-2016 750843), the DigitalGlobe Foundation, the National Cadastre and Mapping Agency, SA (Ktimatologio), ArchaeoLandscapes Europe, the University of Illinois at Chicago, the Society of Women Geographers, the Archaeological Institute of America, and Mount Allison University.</p>
Coolpup.py – a versatile tool to perform pile-up analysis of Hi-C data
<p>Data used for the analysis and to generate the figures. After un-tar-ing, the data is present in three folders. /coolers contains Hi-C data in the .cool format, and associated text files. /beds contains .bed and .bedpe files used in the analysis. /enrichment_jsons contains .json files with results of the "loop-ability" analysis. Code for the data analysis is available here: https://github.com/Phlya/coolpuppy_paper</p>
A Topological Data Analysis Perspective on Non-Covalent Interactions in Relativistic Calculations - supplementary information
<p>This repository contains the supplementary data to the following publication:</p> <p>"A Topological Data Analysis Perspective on Non-Covalent Interactions in Relativistic Calculations", by the same authors.</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.