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11,506 results for “Dynamics”
Dataset from "Combined Landsat and L-Band SAR Data Improves Land Cover Classification and Change Detection in Dynamic Tropical Landscapes"
<p>These are the output land cover and land cover change raster maps from the paper, "<a href="https://doi.org/10.3390/rs10020306">Combined Landsat and L-Band SAR Data Improves Land Cover Classification and Change Detection in Dynamic Tropical Landscapes</a>," published in Remote Sensing journal.</p> <p>ABSTRACT. Robust quantitative estimates of land use and land cover change are necessary to develop policy solutions and interventions aimed towards sustainable land management. Here, we evaluated the combination of Landsat and L-band Synthetic Aperture Radar (SAR) data to estimate land use/cover change in the dynamic tropical landscape of Tanintharyi, southern Myanmar. We classified Landsat and L-band SAR data, specifically Japan Earth Resources Satellite (JERS-1) and Advanced Land Observing Satellite-2 Phased Array L-band Synthetic Aperture Radar-2 (ALOS-2/PALSAR-2), using Random Forests classifier to map and quantify land use/cover change transitions between 1995 and 2015 in the Tanintharyi Region. We compared the classification accuracies of single versus combined sensor data, and assessed contributions of optical and radar layers to classification accuracy. Combined Landsat and L-band SAR data produced the best overall classification accuracies (92.96% to 93.83%), outperforming individual sensor data (91.20% to 91.93% for Landsat-only; 56.01% to 71.43% for SAR-only). Radar layers, particularly SAR-derived textures, were influential predictors for land cover classification, together with optical layers. Landscape change was extensive (16,490 km<sup>2</sup>; 39% of total area), as well as total forest conversion into agricultural plantations (3,214 km<sup>2</sup>). Gross forest loss (5,133 km<sup>2</sup>) in 1995 was largely from conversion to shrubs/orchards and tree (oil palm, rubber) plantations, and gross gains in oil palm (5,471 km<sup>2</sup>) and rubber (4,025 km<sup>2</sup>) plantations by 2015 were mainly from conversion of shrubs/orchards and forests. Analysis of combined Landsat and L-band SAR data provides an improved understanding of the associated drivers of agricultural plantation expansion and the dynamics of land use/cover change in tropical forest landscapes.</p>
Database Manuscript Temperature and moisture are minor drivers of regional-scale soil organic carbon dynamics - Gonzalez Dominguez et al
<p>The database contained the data used in the manuscript <strong>Temperature and moisture are minor drivers of regional-scale soil organic carbon dynamics, by Gonzalez Dominguez et al. </strong></p>
Histone tail dynamics in partially disassembled nucleosomes during chromatin remodeling: Simulation dataset
<p>Dataset of molecular dynamics simulations of partially disassembled nucleosomes.</p> <p>- Input: Parameters and initial structures</p> <p>- Output: Trajectories</p> <p>NAMD 2.12 (multi-core with CUDA) was used for the simulations.</p>
A Layer-averaged Nonhydrostatic Dynamical Framework on an Unstructured Mesh for Global and Regional Atmospheric Modeling: Model Description, Baseline Evaluation and Sensitivity Exploration
<p>Selected model output data for supporting this paper.</p> <p>List of Files:</p> <p>2dtracer.tar.gz: correlated tracer test</p> <p>rh3d.tar.gz: 3D Rossby-Haurwitz Wave</p> <p>modon.tar.gz: Colliding Modons</p> <p>jwss.tar.gz: Jablonowski-Williamson Baroclinic Steady State</p> <p>jwbw_1d.tar.gz: 1D data output from Jablonowski-Williamson Baroclinic Wave</p> <p>jwbw_2d.tar.gz: 2D data output from Jablonowski-Williamson Baroclinic Wave</p> <p>dcmip31.tar.gz: DCMIP3-1 nonhydrostatic gravity wave</p> <p>Klemp15.tar.gz: Nonhydrostatic Mountain Waves in Klemp et al. 2015</p> <p>held-suarez.tar.gz: Held-Suarez dry climate (post-processed data for plotting, the raw daily data are too large to upload)</p> <p>jwbwvr.tar.gz: Variable-Resolution modeling of the Jablonowski-Williamson Baroclinic Wave</p> <p> </p> <p>see https://doi.org/10.5281/zenodo.3544795 for a companion work</p> <p>References:</p> <p>Zhang, Y., J. Li, R. Yu, S. Zhang, Z. Liu, J. Huang, and Y. Zhou, 2019: A Layer-Averaged Nonhydrostatic Dynamical Framework on an Unstructured Mesh for Global and Regional Atmospheric Modeling: Model Description, Baseline Evaluation, and Sensitivity Exploration. <em>Journal of Advances in Modeling Earth Systems</em>, <strong>11,</strong> 1685-1714.</p>
Data in support of manuscript submitted to JGR-Oceans on dredging and estuarine dynamics in the Hudson River
<p>Data used to create the figures shown in a manuscript submitted to JGR-Oceans (special issue for the Physics of Estuaries and Coastal Seas meeting, 2018) titled "Response to channel deepening of the salinity intrusion, estuarine circulation, and stratification in an urbanized estuary" (as Matlab .mat files). Also included is a matlab script (makeFigs_salChange_upload.m) that loads the data files and creates the figures, as well as figure files (*.png). </p>
New insights into the dissociation dynamics of methylated anilines
<p>Aniline, an important model system for biological chromophores, undergoes ultrafast H-atom loss upon absorption of an ultraviolet photon. By varying the number and position of methyl substituents on both the aromatic ring and amine functional group, we explore the ultrafast production of photofragments as a function of molecular structure. Both <em>N</em>-methyl aniline and 3,5-dimethyl aniline show altered H-atom loss pathways compared to aniline, while no evidence for CH<sub>3</sub> loss was found from either <em>N</em>-methyl aniline or <em>N,N</em>-dimethyl aniline. With the addition of time resolved photoelectron spectroscopy, the photofragment appearance times may be matched to excited state relaxation pathways. Evidence for a sequential excited state relaxation mechanism, potentially involving a valence-to-Rydberg decay mechanism, will be presented. Such a global, bottom-up approach to molecular photochemistry is crucial to understanding the dissociative pathways and excited state decay mechanisms of biomolecule photoprotection in nature.</p> <p> </p> <p>All data are saved as a .csv file. Each transient .csv file is labeled according to molecule, pump wavelength, data type, and a date (<em>e.g.</em> NMA_238_TRPES_11Oct2017.csv). The first column contains kinetic energies (either eKE or TKER) while the first row indexes each time delay. The normalised UV absorption spectra are saved in one file, with columns for each molecule.</p>
Dataset - Nutrients and biomass dynamics in photo-sequencing batch reactors treating wastewater with high nutrients loadings
<p>The data set attached consists of one excel file where the data from the article “<strong>Nutrients and biomass dynamics in photo-sequencing batch reactors treating wastewater with high nutrients loadings”</strong>, published in Ecological Engineering (vol. 119, 15<sup>th</sup> August 2018, 35-44.), can be found, as well as the different equations and formulae that were used to obtain the published results.</p>
Data For New Methods for Understanding and Controlling the Self-Assembly of Reacting Systems Using Coarse-Grained Molecular Dynamics
<p>Data necessary to reproduce results in the dissertation : Thomas, Stephen, "New Methods for Understanding and Controlling the Self-Assembly of Reacting Systems Using Coarse-Grained Molecular Dynamics" (2018). <em>Boise State University Theses and Dissertations</em>. 1448.</p> <p>10.18122/td/1448/boisestate</p>
Supplementary data for "Molecular-scale thermally activated fractures in methane hydrates: A molecular dynamics study"
<p>In this dataset you can find</p> <p>- a data sample that can be used to confirm the plots in the paper. This can be found in the folder "data_sample". Each folder inside "data_sample" is one simulation. It contains the thermodynamic output from the simulation (log.lammps), and the input script (mw_hydrate_pennycrack.in) and input data (s1_unit_cell_mw.data and water_methane_hydrate.sw) that enables rerunning the simulation using LAMMPS.</p> <p>- A custom LAMMPS region, region_ellipsoid. This has to be compiled into LAMMPS in order to create the systems that we simulate.</p> <p>- A python script, plot_data.py, that shows how to extract the relevant data from the lammps log files, which enables the partial reproduction of figure 3 in the paper. See instructions below for requirements to use this script.</p> <p> </p> <p>"region_ellipsoid" and "data_sample" are in zip containers. In order to use them, please unzip them and leave the resulting folders in the same directory as this README file.</p> <p> </p> <p>Installation instructions to make "plot_data.py" work (assuming you already have numpy and matplotlib):</p> <p>> pip3 install git+https://github.com/henriasv/regex-file-collector.git</p> <p>> pip3 install git+https://github.com/henriasv/lammps-logfile.git</p> <p> </p> <p>If this does not work, please contact Henrik Andersen Sveinsson, henriasv@fys.uio.no</p>
Data for the Carbon Erosion Dynamics Model (CE-DYNAM)
<p>Data on soil erosion by rainfall and runoff and data on the turnover rates between carbon pools on land of the Rhine catchment for the period 1850-2005. This dataset belongs to the model code that will be published in the near future along with a paper in submission to the GMD journal.</p>
Supplementary data to Schmiester et al. *Efficient parameterization of large-scale dynamic models based on relative measurements*
<p>This archive contains Supplementary data to the manuscript <em>Efficient parameterization of large-scale dynamic models based on relative measurements</em> by Leonard Schmiester, Yannik Schälte, Fabian Fröhlich, Jan Hasenauer and Daniel Weindl.</p>
Megakaryocyte volume modulates bone marrow niche properties and cell migration dynamics
<p>Supplementary videos showing raw time and z-stacks as well a final, processed result for Neutrophil tracking in naive and platelet depleted mouse.</p> <p>Matlab scripts to run simulation of megakaryocytes, neutrophils and hematopoetic stem cell in a vessel environment.</p> <p>Ilastik training data set used in segmentation of bone and bone marrow.</p> <p> </p>
Reproducibility package for the KDD 2019 paper "Pairwise Comparisons with Flexible Time-Dynamics"
<p>This archive contains the data necessary to reproduce most experiments and all plots presented in the following paper:</p> <p>Lucas Maystre, Victor Kristof, Matthias Grossglauser, <a href="https://arxiv.org/abs/1903.07746">Pairwise Comparisons with Flexible Time-dynamics</a>, KDD 2019.</p>
Processed Hi-C contact matrices for "Single-cell DNA replication profiling identifies spatiotemporal developmental dynamics of chromosome organization"
<p>Processed Hi-C interaction matrices (iterative correction) saved in .hic format (40kb bins).</p> <p>.hic files were generated by juicer pipeline using processed Hi-C interaction matrices.</p> <p>Only <em>cis </em>interactions were available.</p> <p>To extract the data, please see </p> <p>https://github.com/aidenlab/juicer/wiki/Data-Extraction</p>
Cloud-Repro: Reproducible Workflow on a Public Cloud for Computational Fluid Dynamics
<p>In a new effort to make our research transparent and reproducible by others, we developed a workflow to run computational studies on a public cloud. It uses Docker containers to create an image of the application software stack. We also adopt several tools that facilitate creating and managing virtual machines on compute nodes and submitting jobs to these nodes. The configuration files for these tools are part of an expanded "reproducibility package" that includes workflow definitions for cloud computing, in addition to input files and instructions. This facilitates re-creating the cloud environment to re-run the computations under the same conditions.</p> <p>The present Zenodo dataset contains all secondary data required to reproduce the figures of the manuscript ("Reproducible Workflow on a Public Cloud for Computational Fluid Dynamics") without running the CFD simulations again.</p>
LBM dynamism analysis with MERIC
<p>Lattice Boltzmann method (LBM) application analysis using READEX approach provided by MERIC library. Exhaustive algorithm has been used for state space search.</p> <p>This data has been measured on a single node of TU Dresden Taurus supercomputer powered by two Intel Xeon CPUs E5-2680v3 (codename Haswell). HDEEM system has been used for energy measurement.</p>
14-day smartphone ambulatory assessment of depression symptoms and mood dynamics in a general population sample: comparison with the PHQ-9 depression screening
<p>This dataset contains 14 days of ambulatory assessment (AA) depression symptoms and mood ratings with timestamps, a retrospective Patient Health Questionnaire (PHQ-9) assessment and the demographic variables age and gender.</p> <p>The AA was conducted with users of the mobile mental health / depression screening app "Moodpath". ICD-10 depression symptoms were assessed with the following questions:</p> <p>ICD-10 symptom 1: "depressed mood"<br> q1 = Are you feeling depressed?<br> q2 = Are you feeling hopeless?</p> <p>ICD-10 symptom 2: "loss of interest and enjoyment"<br> q3 = Do you feel like you are not interested in anything right now?<br> q4 = Do you have less pleasure in doing things you usually enjoy?</p> <p>ICD-10 symptom 3: "increased fatigability"<br> q5 = Do you currently have considerably less energy? <br> q6 = Are your everyday tasks making you very tired currently?</p> <p>ICD-10 symptom 4: "reduced concentration and attention"<br> q11 = Is it hard for you to make decisions currently? <br> q12 = Is it hard for you to concentrate currently?</p> <p>ICD-10 symptom 5: "reduced self-esteem and self-confidence"<br> q7 = Is your self-confidence clearly lower than usual?<br> q8 = Are you feeling up to your tasks? </p> <p>ICD-10 symptom 6: "ideas of guilt and unworthiness"<br> q9 = Are you blaming yourself currently? <br> q10 = Do you think you are worth less than others right now?</p> <p>ICD-10 symptom 7: "bleak and pessimistic views of the future"<br> q46 = Are you thinking that you will be doing well in the future? <br> q47 = Are you looking hopefully into the future?</p> <p>ICD-10 symptom 8: "ideas or acts of self-harm or suicide"<br> q16 = Are you thinking about death more often than usual? </p> <p>ICD-10 symptom 9: "disturbed sleep"<br> q13 = Did you sleep badly last night? </p> <p>ICD-10 symptom 10: "diminished appetite"<br> q14 = Do you have less or no appetite today? </p>
Examining Solvent Effects on the Ultrafast Dynamics of Catechol
<p>The underlying data for the paper "Examining Solvent Effects on the Ultrafast Dynamics of Catechol". This includes geometry optimizations and frequency calculations of catechol in implicit acetonitrile solvent, in an explicit solvent shell, and with two solvent molecules strategically placed. Further to this, it also contains calculated S0 and S1 energies of catechol with varied COH bond angles.</p> <p>Also included is TEAS data for catechol in acetonitrile at 5 mM and 75 mM concentrations, at pump wavelength 267 nm. All results are in delta mOD, all timescales are in ps, and all wavelengths are in nm. The scans labelled "short_scan" only have 4 time delays whereas those labelled "large_scan" contained enough to assemble a kinetic trace. The large scans only include data averaged around 450 nm probe wavelength. The scan labelled "normalised" represents six individual sets of scans spliced together and normalised via consecutive peaks. For more information on this see main body of work. </p>
Mechanisms and drivers of belemnite body-size dynamics across the Pliensbachian-Toarcian crisis
<p>Supplementary material of the manuscript Rita et al., <em>Mechanisms and drivers of belemnite body-size dynamics across the Pliensbachian-Toarcian </em><em>crisis</em>, submited to Open Science Royal Society.</p> <p>Set of .ply files of CT scans of belemnite rostra. The first 27 files correspond to bed P925; the next 5 files correspond to P949; the next 18 correspond to P961; the next 5 correspond to P976; the next 38 specimens correspond to bed P982 and the last 35 files correspond to bed P984. The number of each file is the specimen number, as listed in the supplementary material of the article. For details on the scanning details or on the age of the specimens, please see the supplementary material of the article.</p> <p> </p> <p>The supplementary figures ("supplementary figures_ESM8.docx" file) and tables ("supplementary tables.xlsx" file) and the R script used for the statistical analysis ("supplement_rscript.docx" file) are also provided. </p> <p>For more details contact patricia.rita@fau.de.</p>
A Refined Open State of the Glycine Receptor Obtained Via Molecular Dynamics Simulations
<p>Representative simulation trajectory and coordinate files (starting coordinates a representative structure) from the work which first appeared on bioRxiv:</p> <p>A Refined Open State of the Glycine Receptor Obtained Via Molecular Dynamics Simulations</p> <p>Marc A. Dämgen, Philip C. Biggin</p> <p>bioRxiv 668830; doi: https://doi.org/10.1101/668830</p>
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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.