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7,505 results for “Generation”
Data for: A tool based on the Industry Foundation Classes standard for dynamic data collection and automatic generation of Building Automation Control Networks
<p>This dataset shows the results obtained for a case study at TRL4 for the research paper title <em><strong>A tool based on the Industry Foundation Classes standard for dynamic data collection and automatic generation of Building Automation Control Networks</strong></em>, with DOI: https://doi.org/10.1016/j.jobe.2023.107625</p> <p>This dataset is an enhanced IFC (Industry Foundation Classes) file with the creation of the BACN (Building Automation Control Network). This IFC file includes the devices created automatically by the BACN2BIM tool (developed by CARTIF Technology Centre) for the case study validated at TRL4. The original IFC was obtained from the Institute for Automation and Applied Informatics (IAI) / Karlsruhe Institute of Technology (KIT) https://www.ifcwiki.org/images/e/e3/AC20-FZK-Haus.ifc, under an unrestricted license, as served as one of the case studies for this research.</p> <p>*Depending on the IFC viewer used, the included sensors may not be represented correctly. In this case, it is recommended to try with another IFC viewer, for example xBIM explorer https://docs.xbim.net/downloads/xbimxplorer.html or BimCollab Zoom Free https://www.bimcollab.com/en/support/downloads/</p>
Data release for "Rapid pre-merger localization of binary neutron stars in third generation gravitational wave detectors"
<p>We publish skymap files in fits format of the simulation in our work "Rapid pre-merger localization of binary neutron stars in third generation gravitational wave detectors". There are 68000 BNS events, and results of different negative latencies are zipped in different tar files. An example jupyter notebook for using the data is provided.</p> <p> </p> <p> </p>
Data - Low-Noise Phase-Sensitive Optical Parametric Amplifier with Lossless Local Pump Generation using a Digital Dither Optical Phase-Locked Loop
<p>This dataset contains measurement data and processing code for the results published in "Low-Noise Phase-Sensitive Optical Parametric Amplifier with Lossless Local Pump Generation using a Digital Dither Optical Phase-Locked Loop". The Pyrpl code change used in the work is also attached.</p> <p>This work was funded by the Swedish Research Council (grant VR-2015-00535).</p>
Best-fitting Sea Level Curves generated from the Tidal Notch Generator model
<p>The following dataset contains the data produced by the TidalNotch Generator model found at: https://zenodo.org/badge/latestdoi/700386384 and is part of the publication entitled: <strong>Decoding the interplay between tidal notch geometry and sea-level variability during the Last Interglacial (Marine Isotopic Stage 5e) high stand.</strong></p> <p>Each folder name describes the Erosion Rate used for each simulation, the Linear Regression of each curve group, and the number of peaks: e.g. Filename: 05mm_Negative_3peak. </p> <p>Each of the subfolders contains the final clusters grouped based on the methodology followed, extensively described in the manuscript.</p> <p>Each txt file contains 15 columns, while the content of each one is described below:</p> <p>Column 1: Random Sea Level Curve (Years)</p> <p>Column 2: Random Sea Level Curve (Elevation)</p> <p>Column 3: Modeled Notch Geometry (Notch Depth)</p> <p>Column 4: Modeled Notch Geometry (Notch Elevation)</p> <p>Column 5: Measured Notch Geometry (Notch Depth)</p> <p>Column 6: Measured Notch Geometry (Notch Elevation)</p> <p>Column 7: Fitting score (e.g. 0.17 --> 1-0.17=0.83-->83%)</p> <p>Column 8: Polynomial Order used to Interpolate the Randomly generated Sea Level points</p> <p>Column 9: Erosion Rate used for the simulation</p> <p>Column 10: ID of measured notch profile</p> <p>Column 11: number of simulation </p> <p>Column 12: Inclination of the measured notch</p> <p>Column 13: Category of Inclination</p> <p>Column 14: second ID of measured notch profile</p> <p>Column 15: Linear Regression value</p>
Compound database and subsets generated by the fragment network for stage 3 of the PHIP2 SAMPL7 Challenge
<p>The fragment network provides a convenient way to filter-out compounds that are dissimilar to the input hit(s). Overall, this search algorithm requires a compound input and 3 parameters: 1- the number of graph traversals (hops), 2- number of changes in heavy atom count (hac), 3- number of changes in ring atoms counts (rac). Please, read the reference (Hall, Murray and Verdonk, 2017) for the specifics of the methods.</p>
PanTaGruEl - a pan-European transmission grid and electricity generation model
<p>If you have any questions or comments, please write to <a href="mailto:laurent.vincent.pagnier@gmail.com">laurent.vincent.pagnier@gmail.com</a>.</p> <p>When publishing results based on this data set, please cite:</p> <p>L. Pagnier, P. Jacquod, “Inertia location and slow network modes determine disturbance propagation in large-scale power grids”, PLOS ONE 14(3): e0213550, 2019. <a href="https://doi.org/10.1371/journal.pone.0213550">PLOS ONE 14(3): e0213550</a>, 2019.</p> <p>and</p> <p>M. Tyloo, L. Pagnier, P. Jacquod, “The Key Player Problem in Complex Oscillator Networks and Electric Power Grids: Resistance Centralities Identify Local Vulnerabilities”, <a href="https://doi.org/10.1126/sciadv.aaw8359">Science Advances 5(11): eaaw8359</a>, 2019.</p> <p><strong>Description:</strong></p> <p>PanTaGruEl is a dynamical grid model designed to investigate the propagation of disturbances in the continental European transmission grid.</p> <p>The construction of the model is detailed <a href="https://doi.org/10.1371/journal.pone.0213550.s002">here</a>.</p> <p><strong>Features</strong>:</p> <ul> <li>Precise distribution of national demands to network buses.</li> <li>Realistic electrical parameters of transmission lines.</li> <li>Merit-Order based economic dispatch of generators.</li> <li>Dynamical parameters of generators and loads for transient stability investigations.</li> </ul> <p><strong>Files:</strong></p> <p>Data files:</p> <p>Our model is provided in an extended Matpower format and as csv raw data. For more information on Matpower format, see Appendix B of its <a href="https://matpower.org/docs/MATPOWER-manual.pdf">manual</a>.</p> <p>Script files:</p> <p><em>opf_ex.m </em>performs optimal power flow computations for two load configurations.<br> <em>spectral_ex.m</em> presents a basic spectral analysis.<br> <em>dynamics</em><em>_ex.m</em> give a minimal example of dynamical simulations.</p> <p><strong>Requirements:</strong></p> <p>Our model has been developed for use with <a href="https://matpower.org/">Matpower</a>. If you are interested in a port to another language, please <a href="mailto:laurent.vincent.pagnier@gmail.com?subject=Info%20on%20PanTaGruEl">contact us</a>.</p> <p><strong>Acknowledgement:</strong></p> <p>The authors thank M. Tyloo and K. Van Walstijn for their useful comments and remarks on the model.</p> <p><strong>Sources</strong>:</p> <p>B. Wiegmans, <a href="https://doi.org/10.5281/zenodo.55853">“GridKit extract of ENTSO-E interactive map”</a><br> Global Energy Observatory, <a href="http://globalenergyobservatory.org">“GEO Power plants database”</a><br> Siemens, <a href="http://siemens.com/power-engineering-guide">“Power Engineering Guide”</a></p>
HiRISE DTMs generated using NASA's Ames Stereo Pipeline
<p>In an effort to better understand the surface roughness of Martian lava flows, we generated over 30 HiRISE DTMs using ISIS3 and ASP and extracted their roughness (Rodriguez Sanchez-Vahamonde and Neish, 2020). We have posted these DTMs for public use here. </p> <p>HiRISE stereo images typically have a spatial sampling of 25 - 50 centimeters, providing us with DTMs of 1 - 2 meters per pixel. We also converted the HiRISE stereo-pair ID for each product into its proper DTM ID using the NASA Planetary Data System product naming convention for HiRISE DTMs (<a href="https://www.uahirise.org/dtm/about.php">https://www.uahirise.org/dtm/about.php</a>; last accessed 18.09.2019).</p>
Exploiting Statistical and Structural Features for the Detection of Domain Generation Algorithms
<p>This repository contains a dataset for the research of domain generation algorithms (DGAs) and machine learning. More precisely, it targets dictionary-based DGAs.</p> <p><em>Constantinos Patsakis, Fran Casino: "Exploiting Statistical and Structural Features for the Detection of Domain Generation Algorithms", Journal of Information Security and Applications, 2021.</em></p> <p>Features ordered as in the shared dataset:</p> <ul> <li>Family: DGA that the domain belongs to</li> <li>SLD: SLD of the Domain</li> <li>L-LEN: The length of Domain</li> <li>L-DIG: The number of digits in Domain</li> <li>L-CON-MAX: The maximum number of consecutive consonants Domain</li> <li>R-CON-VOW: Number of consonants divided by L-LEN </li> <li>L-SYM: The number of special characters</li> <li>R-SYM-LEN: L-SYM divided by L-LEN</li> <li>R-Dom-3G: Ratio of benign grams in Dom-3G</li> <li>R-Dom-4G: Ratio of benign grams in Dom-4G</li> <li>R-Dom-5G: Ratio of benign grams in Dom-5G</li> <li>L-W2: Number of words with more than 2 characters in Domain</li> <li>L-W3: Number of words with more than 3 characters in Domain</li> <li>R-WS-LEN: Dom-WS divided by L-LEN</li> <li>R-WDS-LEN: Dom-WDS divided by L-LEN</li> <li>R-W2-LEN: Dom-W2 divided by L-LEN</li> <li>R-W3-LEN: Dom-W3 divided by L-LEN</li> <li>M2-Dom-Ws: 2-Chain Markov English grams applied to Dom-WS</li> <li>M2-Dom-WDS: 2-Chain Markov English grams applied Dom-WDS</li> <li>E-Dom-WS: Entropy of Dom-WS </li> <li>E-Dom-WDS: Entropy of Dom-WDS</li> <li>E-Dom-W2: Entropy of Dom-W2</li> <li>E-Dom-W3: Entropy of Dom-W3</li> </ul>
Randomly generated dataset
<p>This dataset is randomly generated using the built-in function from python random.randint(). This csv file contains 2 columns, index and value. Index represents the unique row id and value represents the randomly generated value at each row.</p>
Multi-fidelity Generative Deep Learning Turbulent Flows
<p>Data sets for the two numerical examples in the paper <a href="https://arxiv.org/abs/2006.04731">Multi-fidelity Generative Deep Learning Turbulent Flows</a> as well as two pre-trained models. In this work, a novel multi-fidelity deep generative model is introduced for the surrogate modeling of high-fidelity turbulent flow fields given the solution of a computationally inexpensive but inaccurate low-fidelity solver. The resulting surrogate is able to generate physically accurate turbulent realizations at a computational cost magnitudes lower than that of a high-fidelity simulation. The deep generative model developed is a conditional invertible neural network, built with normalizing flows, with recurrent LSTM connections that allow for stable training of transient systems with high predictive accuracy. Data is provided from OpenFOAM LES simulations for turbulent flow over backwards step and flow around an array of cylinders.</p> <p>Data-set Files:</p> <ul> <li><a href="https://zenodo.org/api/files/cf158661-2a30-4c8f-aa97-cd5c1600910c/backward_step_testing.tar.gz?versionId=320a523f-0015-4ba3-8c6e-66733ab5a1af">backward_step_testing.tar.gz</a> - Backward step testing data.</li> <li><a href="https://zenodo.org/api/files/cf158661-2a30-4c8f-aa97-cd5c1600910c/backward_step_training.tar.gz?versionId=ac34ac15-973d-4fb8-8881-faa17eced69f">backward_step_training.tar.gz</a> - Backward step training data.</li> <li><a href="https://zenodo.org/api/files/cf158661-2a30-4c8f-aa97-cd5c1600910c/cylinder_array_testing.tar.gz?versionId=ebbea725-c8b6-4338-978b-dc73f943552e">cylinder_array_testing.tar.gz</a> - Cylinder array testing data.</li> <li><a href="https://zenodo.org/api/files/cf158661-2a30-4c8f-aa97-cd5c1600910c/cylinder_array_training.tar.gz?versionId=b0409c34-fb19-45c4-bbba-6968fdcfc4d8">cylinder_array_training.tar.gz</a> - Cylinder array training data.</li> </ul> <p>Pre-trained Models:</p> <ul> <li><a href="https://zenodo.org/api/files/cf158661-2a30-4c8f-aa97-cd5c1600910c/bstepWorkspace400.zip">bstepWorkspace400.zip</a> - Backward step pre-trained model.</li> <li><a href="https://zenodo.org/api/files/cf158661-2a30-4c8f-aa97-cd5c1600910c/cylinderWorkspace400.zip">cylinderWorkspace400.zip</a> - Cylinder array pre-trained model.</li> </ul> <p> </p>
Excavator-generated information from Linux drivers (Decoder Use-Case A)
<p>This dataset is released as part of DECODER's D6.2 deliverable. It contains the information generated by the Excavator tool for easing the verification with Frama-C of the watchdog and ethernet Linux drivers that have been selected as Use-Case A of the project.</p>
New Generation UV-A Filters: Understanding Their Photodynamics on a Human Skin Mimic
<p>The sparsity of efficient commercial ultraviolet-A (UV-A) filters is a major challenge towards developing effective broadband sunscreens with minimal human- and eco-toxicity. To combat this, we have designed a new class of Meldrum-based phenolic UV-A filters. We explore the ultrafast photodynamics of coumaryl Meldrum, CMe, and sinapyl Meldrum, SMe, both in an industry standard emollient and on a synthetic skin mimic, using femtosecond transient electronic and vibrational absorption spectroscopies, and computational simulations. Upon photoexcitation to the lowest excited singlet state (S<sub>1</sub>), these Meldrum-based phenolics undergo fast and efficient non-radiative decay to repopulate the electronic ground state (S<sub>0</sub>). We propose an initial ultrafast twisted intramolecular charge transfer mechanism as these systems evolve out of the Franck-Condon region towards an S<sub>1</sub>/S<sub>0</sub> conical intersection, followed by internal conversion to S<sub>0</sub> and subsequent vibrational cooling. Importantly, we correlate these findings to their long-term photostability upon irradiation with a solar simulator and conclude that these molecules surpass the basic requirements of an industry standard UV filter.</p>
Resilient farm demographics withstand, adapt, or transform in the face of competitive pressure, technological change, and the expected lifestyles of future generations
<p>Farm demographics has been recognized as an important driver of structural change in European agriculture. Focus groups and computer simulations on farm demographic change were used to better understand its role for the case study regions of the Altmark in the eastern part of Germany and Flanders in the northern part of Belgium. According to these analyses, many potential agricultural entrants are deterred by what they view as a poor quality of life that farming offers. This applies to farm successors as well as hired workers. For higher attractiveness of agriculture, policy objectives should address the social image of farming as well as revitalize rural areas. Increasingly critical is the demand for skilled hired labour. However, policies dealing with farm demographic change ignore these needs and focus almost exclusively on farm succession. Particularly, the direct payment system, including additional support for small farms and young farmers, must be re-evaluated for its effectiveness. The analyses provide evidence that this system constrains European agricultural development more than assists it; ultimately preventing farms from adapting and transforming.</p>
SGD-SM: Generating Seamless Global Daily AMSR2 Soil Moisture Long-term Products (2013-2019)
<p><strong>If you used our dataset, please cite our reference:</strong></p> <p><strong>Zhang, Q., Yuan, Q., Li, J., Wang, Y., Sun, F., and Zhang, L.: Generating seamless global daily AMSR2 soil moisture (SGD-SM) long-term products for the years 2013–2019, Earth Syst. Sci. Data, 13, 1385–1401, https://doi.org/10.5194/essd-13-1385-2021, 2021.</strong></p> <p><strong>Description:</strong></p> <ul> <li>A <strong>seamless global daily</strong> (<strong>SGD</strong>) AMSR2 soil moisture long-term (2013-2019) dataset is generated through the proposed model. This daily products include <strong>2553</strong> global soil moisture NetCDF4 files, starting from Jan 01, 2013 to Dec 31, 2019 (about <strong>20GB</strong> memory after uncompressing this zip file).</li> <li>To further validate the effectiveness of these products, three verification ways are employed as follow: 1) In-situ validation; 2) Time-series validation; And 3) simulated missing regions validation. More validation results can be viewed at <strong><a href="https://qzhang95.github.io/Projects/Global-Daily-Seamless-AMSR2">SGD-SM</a></strong>.</li> <li>An example Python code of extracting this dataset is also available at <strong><a href="https://github.com/qzhang95/SGD-SM">https://github.com/qzhang95/SGD-SM</a></strong>.</li> <li>Official LPRM AMSR2 Descending L3 soil moisture products indeed only have 28 daily files in May 2013 (missing data files in date May 11, May 12, and May 13).</li> <li>This soil moisture dataset is comprised of netCDF4 (*.nc) files. Therefore, users need to install <strong>netCDF4</strong> toolkit before reading the data: <pre><code class="language-python">pip install netCDF4 pip install numpy</code></pre> <p> </p> </li> <li>It should be noted that the original and reconstructed soil moisture data are both recorded in one NC file. User can read the original data, reconstructed data, and mask data as follows:</li> <li> <pre><code class="language-python">Data = nc.Dataset(NC_file_position) Ori_data = Data.variables['original_sm_c1'] Rec_data = Data.variables['reconstructed_sm_c1'] Ori = Ori_data[0:720, 0:1440] Rec = Rec_data[0:720, 0:1440] Mask_ori = np.ma.getmask(Ori)</code></pre> <p> </p> </li> </ul>
Supporting Data for: Information Retrieval Interfaces in Virtual Reality - A Scoping Review Focused on Current Generation Technology
<p>This is the full data set of all reviewed research items obtained from Google Scholar, Web of Science and Scopus for the Scoping Literature Review <em><a href="https://doi.org/10.1371/journal.pone.0246398">Information Retrieval Interfaces in Virtual Reality - A Scoping Review Focused on Current Generation VR technology</a>.</em></p>
Github data for static site generators (SSG) popularity
<p>Number of Github stars, forks, open issues, create and last modified dates for 30 open source static site generators (SSG), including Hugo, Jekyll and Gatsby.</p>
Next generation global ice-ocean-biogeochemistry coupled model with 13C-cycling (GFDL MOM5-BLING13C)
<p> </p> <p>======= DESCRIPTION =======</p> <p>This is the model output supporting our paper <em>A next generation ocean carbon isotope model for climate studies I: Steady state controls on ocean <sup>13</sup>C</em> (2021 Global Biogeochemical Cycles).</p> <p>This model output simulates the transient response of ocean carbon biogeochemistry to anthropogenic CO<sub>2</sub> and <sup>13</sup>CO<sub>2</sub> atmospheric emissions with a nominal lateral resolution of 1° and 50 vertical levels. The model uses the NOAA's Geophysical Fluid Dynamics Laboratory (GFDL) MOM5 coupled to the NOAA-GFDL Biogeochemistry with Light Iron Nutrients and Gas (BLING) with <sup>13</sup>C-cycling. Atmospheric forcing is prescribed using the repeating annual cycle of the Common Ocean Reference Experiment version 2 normal year forcing dataset (COREv2-NYF). The implementation of <sup>13</sup>C-cycling applies isotopic fractionations during air-sea gas exchange, photosynthetic production of organic matter, and formation of calcium carbonate. The sensitivity of dissolved inorganic <sup>13</sup>C in the ocean to the CO<sub>2</sub> gas exchange rate is explored by repeating the simulation twice, once using the latest OMIP-CMIP6 protocol for the k-U<sub>10 </sub>parameterization (standard) and once using the previous OCMIP2 protocol (fast-gas-exchange).</p> <p> </p> <p>Files information:</p> <ul> <li><strong>ocean_static.nc</strong>: Static fields (longitude, latitude, area).</li> <li><strong>1990-2002.ocean_month.nc</strong>: Monthly output between 1990 and 2002 of ocean physical variables (temperature, salinity, averaged mixed layer depth, maximum mixed layer depth).</li> <li><strong>1990-2002.ocean_bling_trc_month_CMIP6.nc</strong>: Monthly output between 1990 and 2002 of biogeochemical variables* for the simulation using the OMIP-CMIP6 air-sea gas exchange protocol.</li> <li><strong>1970_1989_d13c_org_mldave_CMIP6.nc</strong>: Monthly output between 1970 and 1989 of d<sup>13</sup>C of organic matter averaged over the mixed layer.</li> <li><strong>1990-2002.ocean_bling_trc_month_OCMIP2.nc</strong>: Monthly output between 1990 and 2002 of biogeochemical variables* for the simulation using the OCMIP2 air-sea gas exchange protocol.</li> </ul> <p>* Biogeochemical variables are dissolved inorganic carbon, dissolved inorganic carbon-13, oxygen, and dissolved inorganic phosphate.</p> <p> </p> <p>======= HOW TO CITE =======</p> <p>This model output can be freely distributed, but please cite it using the following paper:</p> <p>Claret, M., Sonnerup, R. E., & Quay, P. D. (2021). A next generation ocean carbon isotope model for climate studies I: Steady state controls on ocean <sup>13</sup>C. <em>Global Biogeochemical Cycles</em>, 35, e2020GB006757. <a href="https://doi.org/10.1029/2020GB006757">https://doi.org/10.1029/2020GB006757</a></p> <p> </p> <p>======= ACKNOWLEDGEMENTS =======</p> <p>This work was funded by the National Science Foundation (NSF-OCE 1356756 and NSF-OCE 1829796). We would also like to acknowledge high-performance computing support from Cheyenne (<a href="https://doi.org/10.5065/D6RX99HX">doi:10.5065/D6RX99HX</a>) provided by NCAR's Computational and Information Systems Laboratory, sponsored by the NSF.</p> <p> </p> <p>======= QUESTIONS AND REQUESTS? =======</p> <p>Please contact Mariona Claret (mclaret@uw.edu) or Rolf Sonnerup (rolf@uw.edu).</p> <p> </p>
Rye microgrid load and generation data, and meteorological forecasts.
<p>This dataset contains timeseries for Rye Microgrid, Trondheim, Norway. The timeseries include solar and wind power generation, consumption and historical weather forecasts.</p> <p>From <a href="https://github.com/TronderEnergi/tronderenergi-ai-hackathon-2021">https://github.com/TronderEnergi/tronderenergi-ai-hackathon-2021</a>:</p> <p><em>"The Rye microgrid is a pilot within the EU research project REMOTE. It is a small microgrid placed at Langørgen, in the outskirts of Trondheim, and is a small energy system designed to supply electricity to a modern farm and three households. The REMOTE projects goal for Rye Microgrid is to run the system in islanded mode.</em></p> <p><em>The system has two sources of generation – a wind turbine and a rack of PV panels. In addition, the system has two storages – a battery with high charge and discharge response, but with limited storage and losses, and a hydrogen energy system, with lower charge and discharge rates, higher losses and storage capacity. When you want to charge the hydrogen system, electricity is used to run an electrolyser that makes hydrogen from water and stores the resulting hydrogen in a tank. The process can be reversed by producing electricity from hydrogen using a fuel cell. (...)</em></p> <p><em>Morover, when local production or discharges from storages are not sufficient to cover the demand, the microgrid can draw electricity from the grid at some costs."</em></p> <p> </p> <p>For further details, see: <a href="https://www.remote-euproject.eu/remote18/rem18-cont/uploads/2019/03/REMOTE-D2.2.pdf">https://www.remote-euproject.eu/remote18/rem18-cont/uploads/2019/03/REMOTE-D2.2.pdf</a> and <a href="https://github.com/TronderEnergi/tronderenergi-ai-hackathon-2021">https://github.com/TronderEnergi/tronderenergi-ai-hackathon-2021</a></p> <p>rye_generation_and_load.csv is a comma-separated csv-file with the following columns (all values in <em>kW </em>and time as UTC):</p> <ul> <li>Consumption: Consumption of loads in system (residential and agriculture).</li> <li>Solar: Total production from all solar PV racks.</li> <li>Wind: Power production from wind turbine.</li> </ul> <p>met_data.h5: Contains historical weather forecasts data from The Norwegian Meteorological Institute (met.no) updated every 6 hours for the given location. The file is in hdf5 format. The forecasts include the following parameters: air_pressure_at_sea_level [Pa], air_temperature_2m [K], cloud_area_fraction [pu], integral_of_surface_downwelling_shortwave_flux_in_air_wrt_time [J/m<sup>2</sup>s], wind_direction_10m [deg], wind_speed_10m [m/s]</p> <p>The structure of the file is as follows:</p> <ul> <li>lat63_41_lon10_11 (coordinates) <ul> <li>[forecasted parameter] <ul> <li>forecast <ul> <li>2020-01-01T00Z (time forecast was issued) <ul> <li>axis0 (columns, index where each represent a point in a geographical grid. For example if axis=0,1,2,3, the tables contains the forecasts for the four closes points to the microgrid.)</li> <li>axis1 (rows, timestamps)</li> <li>block0_items (equal to axis0)</li> <li>block0_values (matrix, forecast values)</li> </ul> </li> </ul> </li> </ul> </li> </ul> </li> </ul>
SNP and indel discovery and genotyping in next-generation sequencing data
<p>Code, logs and data for discovery and genotyping of SNPs and indels, in the the D.melanogaster genome, using GATK HaplotypeCaller. Code is in the zipped folder named code.zip. Run logs for this code as in the zipped folder named logs.zip. The unfiltered vcf genotypes file is named lhm_rg_HC_2015-09-15.vcf.gz. The filtered vcf genotypes file is named f1.lhm_rg_HC_raw.vcf.gz. The vcf submitted to NCBI dbSNP (filtered, and with indels >50bp and variants with null alternate alleles both removed) is named dbSNP.lhm_rg_HC_raw.vcf.gz. The folder local_reference.zip contains the reference assembly files against which genotypes were called against, and includes the code used to format the data prior to use. Also included is genotypes data from the two in-house reference line samples sequenced (BDGP6+ISO1 mito/dm6, Bloomington <em>Drosophila</em> Stock Center no. 2057)</p> <p>Samples are 220 Sussex-LH<sub>M</sub> hemiclones, and 2 RG. The first run did not include chromosome 4 and the mitochondrial genome, so these were genotyped separately, and then added to the rest of the results.</p> <p>The link for the NCBI dbSNP record is currently https://www.ncbi.nlm.nih.gov/projects/SNP/snp_viewBatch.cgi?sbid=1062461and the submitter handle is MORROW_EBE_SUSSEX.</p> <p>At the time of writting, the NCBI D.melanogaster build is still being updated, and therefore ss identifiers, but not rs identifers are available.</p> <p>The pre-print manuscript for this data is available on biorxiv: "Whole genome resequencing of a laboratory-adapted Drosophila melanogaster population sample" http://biorxiv.org/content/early/2016/10/17/081554 doi: http://dx.doi.org/10.1101/081554</p>
Structural variant discovery and genotyping in next-generation sequencing data
<p>Code, logs, data, and summaries for detection and genotyping of genomic structural variants in the D.melanogaster Sussex LHM hemiclones (and one in-house reference line individual), using Genomestrip/2.0</p> <p>The unfiltered CNV pipleline results are lhm_gs.cnvs.raw.vcf.gz</p> <p>Filtered CNV results (including removal of bad samples) are filtered.goodS.lhm_gs.cnvs.raw.vcf.gz</p> <p>The file uploaded to NCBI dbVAR (which comprises of the filtered CNVs and indels >50bp from the HaplotypeCaller method) is lhm_sx16.dbVAR.vcf.gz</p> <p>The NCBI dbVAR accession number is nstd134. Code, logs and summary data are in the zipped archives, named accordingly. The archive reference_data.zip contains additional input files required for Genomestrip, including a shell script for making some of them. The file gstrip_lhm_RG_bams.list is also an input for Genomestrip, indicating bam file names and paths.</p> <p>The pre-print manuscript for this data is available on biorxiv: "Whole genome resequencing of a laboratory-adapted Drosophila melanogaster population sample" http://biorxiv.org/content/early/2016/10/17/081554 doi: http://dx.doi.org/10.1101/081554</p> <p> </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.