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16 results for “demeter”
Investigating sediment supply impact on centennial saltmarsh biogeomorphic development with Demeter
<p>This repository contains a series of simulations to investigate the impact of (changing) sediment supply on the long-term biogeomorphic development (200 years) of saltmarshes (4 km<sup>2</sup>). The model used is Demeter (https://doi.org/10.5281/zenodo.7101535). </p> <p>Each simulation output file contains:</p> <ul> <li>yearly bottom elevation maps (resolution of 5 m);</li> <li>yearly vegetation coverage maps (resolution of 5 m);</li> <li>yearly hydroperiod maps (resolution of 5 m);</li> <li>yearly exceeding bottom shear impulse maps (resolution of 5 m);</li> <li>vegetation distribution maps every 5 years (resolution of 50 cm).</li> </ul> <p>Each simulation is also processed to compute channel network characteristics with TidalGeoPro (https://doi.org/10.5281/zenodo.7153257), such as:</p> <ul> <li>maximum upstream channel length along channel network skeleton every 20 years (resolution of 5 m);</li> <li>total upstream channel length within tidal watershed along channel network skeleton every 20 years (resolution of 5 m);</li> <li>tidal watershed surface area along channel network skeleton every 20 years (resolution of 5 m);</li> <li>mean unchanneled path length within tidal watershed along channel network skeleton every 20 years (resolution of 5 m);</li> <li>channel cross-section width, depth and area along channel network skeleton every 20 years (resolution of 5 m);</li> <li>yearly unchanneled path length maps (resolution of 5 m).</li> </ul> <p>If you are interested to use this dataset, or collaborate with the authors, please contact Olivier Gourgue (ogourgue@gmail.com).</p>
Demeter Input Files for 0.05 degree LULCC from GCAM SSP/RCP/GCM Scenario Runs
<p>Global future land use (LU) is an important input for Earth system models for projecting Earth system dynamics and is critical for many modeling studies on future global change. Here we generated a new global gridded LU dataset using the Global Change Analysis Model (GCAM ) and a geospatial downscaling model (Demeter) under diverse Shared Socioeconomic Pathways (SSPs) and Representative Concentration Pathways (RCPs) scenarios. Compared to existing similar datasets, the presented dataset has a higher spatial resolution (0.05°×0.05°) and is spread under more diverse SSP-RCP scenarios (in total 15 scenarios), and considers uncertainties from the forcing climates. The presented dataset will be useful for global Earth system modeling studies, especially for the analysis of the impacts of land use and land cover change and socioeconomics, as well as the characterizing the uncertainties associated with these impacts.</p> <p>The dataset includes the inputs for Demeter to produce projected global gridded land cover (excluding the Antarctic) for the period of 2015-2100 at 0.05-degree resolution and 5-year time step under fifteen SSP-RCP scenarios driven by five GCMs (i.e., gfdl, hadgem, ipsl, miroc, and noresm), using the Global Change Analysis Model (GCAM) and a geospatial downscaling model (Demeter). See <a href="https://github.com/JGCRI/chen_et_al_2020a">https://github.com/JGCRI/chen_et_al_2020a</a> for details on how to reproduce this experiment.</p> <p> </p>
Reproducing the FeS2 Example from the Demeter Tutorials
<p>These files are provided to complement the learning materials for managing RO-Crates in Galaxy.</p> <p>The files included are:</p> <ul> <li>A crystal structure file for performing a feff fit (1564889.cif).</li> <li>A XAS spectra file to process and analyse (fes2_rt01_mar02.xmu).</li> <li>A Galaxy workflow file to perform the process and analysis (Galaxy-Workflow-FeS2_Analysis.ga)</li> <li>A Galaxy RO-Crate file which can be restored to see the processing and analysis directly.</li> </ul> <p>The workflow and RO-Crate reproduce the EXAFS fitting example for athena and artemis as described by <a href="https://github.com/bruceravel/demeter/tree/master/examples/recipes/FeS2">Bruce Ravel</a>. Instead of using the FeS2.inp file in the original example, the workflow uses a crystal structure file (<a href="https://www.crystallography.net/cod/cif/1/56/48/1564889.cif">1564889.cif</a>) from the Crystallography Open Database (COD).</p> <p>This RO is published as part of the research data submitted for the paper <strong>Facilitating Reproducibility in Catalysis Research with Managed Workflows and RO-Crates: A Galaxy Case Study</strong>, ChemCatChem, DOI: 10.1002/cctc.202401676.</p>
GCAM Version 2 Reference Scenario with Water Constraints Downscaled with Demeter to 5-arcmin (Irrigated, Rain-fed)
<p>GCAM Version 2 Reference Scenario with Water Constraints Downscaled with Demeter to 5-arcmin resolution for year 2015 for irrigated and rain-fed GCAM crop breakout along with forest, urban, sparse, snow, shrub land classes. This run was generated for use by the `teleconnect` package (see <a href="https://github.com/IMMM-SFA/teleconnect">https://github.com/IMMM-SFA/teleconnect</a>). The following is the full README found in the zipped data resource:</p> <blockquote> <p>GCAM v5.2 to Demeter </p> <p>Title:<br> Demeter output for GCAM v5.2 with water constraints - Reference scenario</p> <p>Description:<br> Demeter run conducted using the base layer combining Mirca and Modis v6 type 5 to generate rain-fed and irrigated crops constrained to Modis crop area. GCAM projection split RockIceDesert into snow and sparse land classes.</p> <p>Building the Demeter base layer for use with GCAM allocated land classes and use types:<br> Described in the readme_gcam-reg32basin235_modis-v6-2010_mirca2000_5arcmin.pdf document the docs directory of this data archive.</p> <p>GCAM Version: https://github.com/JGCRI/gcam-core/tree/gcam-v5.2 ; https://doi.org/10.5281/zenodo.3528353 </p> <p>GCAM Reference:<br> Calvin, K., Patel, P., Clarke, L., Asrar, G., Bond-Lamberty, B., Cui, R. Y., Di Vittorio, A., Dorheim, K., Edmonds, J., Hartin, C., Hejazi, M., Horowitz, R., Iyer, G., Kyle, P., Kim, S., Link, R., McJeon, H., Smith, S. J., Snyder, A., Waldhoff, S., and Wise, M.: GCAM v5.1: representing the linkages between energy, water, land, climate, and economic systems, Geosci. Model Dev., 12, 677–698, https://doi.org/10.5194/gmd-12-677-2019, 2019.</p> <p>Demeter Reference:<br> Vernon, C.R., Le Page, Y., Chen, M., Huang, M., Calvin, K.V., Kraucunas, I.P. and Braun, C.J., 2018. Demeter – A Land Use and Land Cover Change Disaggregation Model. Journal of Open Research Software, 6(1), p.15. DOI: http://doi.org/10.5334/jors.208</p> <p>Run:<br> GCAM reference scenario with water constraints conducted by Sonny Kim (skim@pnnl.gov) originally retrieved from PNNL's Constance here: /pic/projects/GCAM/water_market/database_basexdbGCAM51WaterConstr. </p> <p>Contents:<br> teleconnect_agu2019<br> -- config_gcam5p1_watconstr_ref.ini (Demeter configuration file) <br> -- code (code to run Demeter pre-, run, and post-processing)<br> ---- README.txt (Description of run order and process for Demeter on Constance)<br> ---- demeter_preprocess.py (Python script to extract land data from the GCAM database and split RockIceDesert into snow and sparse)<br> ---- demeter_postprocessing.py (Python script to create fractional output of Demeter's native output in square kilometers)<br> ---- run_demeter.py (Python script to run Demeter)<br> ---- run_demeter_gcam5p1_watconstr_ref.sh (sbatch script to submit a Demeter run on Constance)<br> ---- run_postprocessing.sh (sbatch script to submit a post-processing run on Constance)<br> ---- run_preprocessing.sh (sbatch script to submit a pre-processing run on Constance)<br> ---- slurm-11504861.out (Slurm output from Demeter run)<br> -- GCAM <br> ---- database_basexdbGCAM51WaterConstr (GCAM output database)<br> -- inputs (input files used by Demeter) <br> ---- allocation <br> ------ gcam_regbasin_modis_v6_type5_mirca_5arcmin_constraint_alloc.csv (weighting of constraints)<br> ------ gcam_regbasin_modis_v6_type5_mirca_5arcmin_observed_alloc.csv (reclassification table for observed land classes to Demeter final land classes)<br> ------ gcam_regbasin_modis_v6_type5_mirca_5arcmin_order_alloc.csv (processing order for land classes)<br> ------ gcam_regbasin_modis_v6_type5_mirca_5arcmin_projected_alloc.csv (reclassification table for GCAM land classes to Demeter final land classes)<br> ------ gcam_regbasin_modis_v6_type5_mirca_5arcmin_transition_alloc.csv (transition order for land classes)<br> ---- constraints<br> ------ 000_nutrientavail_hswd_5arcmin.csv (nutrient availability constraint weighted by grid cell)<br> ------ 001_soilquality_hswd_5arcmin.csv (soil quality constraint weighted by grid cell)<br> ---- observed<br> ------ gcam_reg32_basin235_modis_v6_2010_mirca_2000_5arcmin_sqdeg_wgs84_11Jul2019.csv (Demeter base layer)<br> ---- projected<br> ------gcam_5p1_watconst_reference.csv (output from demeter_preprocess.py from GCAM output)<br> ------gcam_5p1_watconst_reference_split.csv (output from demeter_preprocess.py from GCAM output with RockIceDesert split into snow and sparse land classes)<br> ---- reference (see https://github.com/IMMM-SFA/demeter)<br> ------ aezcoord.csv<br> ------ countrycoord.csv<br> ------ gcam_basin_lookup.csv<br> ------ gcam_regions_32.csv<br> ------ limits.csv<br> ------ query_land_reg32_basin235_gcam5p0.xml (land allocatio query)<br> ------ regioncoord.csv<br> -- for_teleconnect<br> ---- usa_demeter.csv (file used by the `teleconnect model` containing only 5-arcmin grid cells that are in GCAM region 1 (USA))<br> -- outputs (output files from Demeter run)<br> ---- ref_watconstr_2019-11-07_07h20m46s (output Demeter run directory)<br> ------ log_files (log file directory)<br> -------- logfile_ref_watconstr_2019-11-07_07h20m46s.log (log file from Demeter run)<br> ------ spatial_landcover_tabular<br> -------- landcover_2015_fraction.csv (fraction of land cover per grid cell per land class for 2015) <br> -------- landcover_2015_sqkm.csv (square kilometers of land cover per grid cell per land class for 2015) <br> -------- landcover_2015_timestep.csv (square kilometers of land cover per grid cell per land class for 2015) <br> -- docs <br> ---- readme_gcam-reg32basin235_modis-v6-2010_mirca2000_5arcmin.pdf (creation of the Demeter base layer)</p> </blockquote>
Medico-economic Study of the Subglottic Secretions Drainage in Prevention of Ventilator-associated Pneumonia (DEMETER)
ClinicalTrials.gov study NCT02515617. IPD Sharing: Not stated. Countries: 4. Publications: 5.
Demeter - Input and Output Data
<p>This dataset includes input and output data for 20 combinations of GCM/RCP scenarios for the Demeter model. The GCM and RCP selected for the study of Argentina Energy-Water-Land Systems are MIROC-ESM-CHEM and RCP 6.0.</p>
Loss of Linker Histone H1 in the Maternal Genome Influences DEMETER-Mediated Demethylation and Affects the Endosperm DNA Methylation Landscape
GEO Series GSE217279. Arabidopsis thaliana. 17 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
Roles of DEMETER in regulating DNA methylation in vegetative tissues and pathogen resistance (RNA-Seq)
GEO Series GSE164915. Arabidopsis thaliana. 12 samples. Type: Expression profiling by high throughput sequencing.
Loss of Linker Histone H1 in the Maternal Genome Influences DEMETER-Mediated Demethylation and Affects the Endosperm DNA Methylation Landscape (Bisulfite-Seq)
GEO Series GSE217277. Arabidopsis thaliana. 6 samples. Type: Methylation profiling by high throughput sequencing.
Demeter Inputs for Chen et al. 2020
<p>These are the inputs used in Demeter runs for the Chen et al. 2020 submission "Global land use projections for 2015-2100 at 0.05-degree resolution under diverse Shared Socioeconomic Pathways and Representative Concentration Pathways."</p> <p>The input structure is described in detail in:</p> <p>Vernon, C.R., Le Page, Y., Chen, M., Huang, M., Calvin, K.V., Kraucunas, I.P. and Braun, C.J., 2018. Demeter – A Land Use and Land Cover Change Disaggregation Model. <em>Journal of Open Research Software</em>, 6(1), p.15. DOI: <a href="http://doi.org/10.5334/jors.208">http://doi.org/10.5334/jors.208</a></p> <p>Configuration files were created for each run and are contained in the "config_files" directory.</p> <p> </p>
The Catalytic Core of DEMETER Guides Active DNA Demethylation in Arabidopsis
GEO Series GSE130559. Arabidopsis thaliana. 6 samples. Type: Methylation profiling by high throughput sequencing.
Loss of Linker Histone H1 in the Maternal Genome Influences DEMETER-Mediated Demethylation and Affects the Endosperm DNA Methylation Landscape (RNA-Seq)
GEO Series GSE217278. Arabidopsis thaliana. 11 samples. Type: Expression profiling by high throughput sequencing.
Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
GEO Series GSE9408. Arabidopsis thaliana. 4 samples. Type: Expression profiling by array.
Roles of DEMETER in regulating DNA methylation in vegetative tissues and pathogen resistance
GEO Series GSE164916. Arabidopsis thaliana. 37 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
4664 BM Demeter Torch
This is a 3D model of a Roman marble statue, located in the British Museum. Excavated from a findspot in Athens, this sculpture depicts Demeter (Ceres), the Greek (Roman) goddess of the harvest, holding a torch. The statue rests on a Roman funerary altar, not shown in the 3D model. Her nose and head covering (*stephane*) have been restored. Demeter was commonly shown carrying a torch, as she searched for her daughter Persephone when she was abducted by Hades. **Bibliography**: [British Museum](https://bit.ly/3e0XDZ9); [Ancient History Encyclopedia](https://bit.ly/3aLNWeU) #Ancient World 3D This model posting is part of Ancient World 3D, a website that provides curated 3D open access content for Classical Studies. Each model has an etched catalog# and [3D Printable frame](https://skfb.ly/6RDRt) for building a library. The [original model was posted by Scan the World](https://mmf.io/o/4664). This entry was composed by Rachel Moore (Dr. Elizabeth Thill, advisor). Source: Objaverse 1.0 / Sketchfab
Roles of DEMETER in regulating DNA methylation in vegetative tissues and pathogen resistance (BS_Seq)
GEO Series GSE164914. Arabidopsis thaliana. 25 samples. Type: Methylation profiling by high throughput sequencing.
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International Brain Laboratory public data
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