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2,649 results for “optics”
Dataset related to the publication "An optical pascal in Sweden"
<p>The data set consists of; The published paper, all figures that present measurement or simulation data in .png and .fig format and the underlying data plotted in the figures in text format. The published plots were generated from the fig files. The text files were generated by reading the plotted data from the fig files. The files are named Fig_XX were XX corresponds to the figure number in the publication. The format of the text file is as follows. Before every data set there is a header consisting of; The number of the subplot where the data is plotted (Plot: XX), the number of the data set in the sub plot (DataSet: XX), and the color of the line or marker in the plot (Color: XX). The description of what each color represents can be found in the publication.</p>
DATASET: Water Phantom Characterization of a Novel Optical Fiber Sensor for LDR Brachytherapy
<p>Dataset for the journal article "Water Phantom Characterization of a Novel Optical Fiber Sensor for LDR Brachytherapy"</p>
Metal-organic framework optical thermometer based on Cr3+ ions luminescence - data
<p><strong>Project NCN SONATA 16 2020/39/D/ST5/01289<br><br>Experimental data:</strong> Raman and diffuse reflectance spectra, band gap and crystal field strength, decay profiles and lifetimes, temperature-dependent luminescence and emission maps, thermometric parameters, exemplary system’s luminescent characteristics, unit cell characteristics, powder XRD data, Kubelka-Munk function with band gap estimation, excitation and emission spectra, stability of PL</p>
Dataset for Unrolled-DOT: An Interpretable Deep Network for Diffuse Optical Tomography
<p>Official dataset repository for Unrolled-DOT: An Interpretable Deep Network for Diffuse Optical Tomography. The repository contains both the experimental dataset (allTrainingDat_30-Sep-2021.mat) as well as data that is a dependency for running our code (5_29_21_src-det_10x10_scene_4cm.zip).</p>
Main text figure data and scripts for "Simulating optical linear absorption for mesoscale molecular aggregates: an adaptive hierarchy of pure states approach"
<p>(as README.txt):</p> <p>Main text figure data and scripts for “Simulating optical linear absorption for mesoscale molecular aggregates: an adaptive hierarchy of pure states approach”, by Tarun Gera, Lipeng Chen, Alex Eisfeld, Jeffrey R. Reimers, Elliot J. Taffet and Doran I. G. B. Raccah.</p> <p>Each directory is dedicated to a particular figure published in the paper. In each directory there are sub-directories which contains the data plotted in each panel. Each data file is a 2-D list in the format of (x,y) for each plot. There are python scripts (Fig_X.py) in each directory to plot the data.</p> <p>Table of contents:</p> <p>Figure_2:</p> <p> - 4_site_edge_contri.npy: Calculated edge sites contribution to the total absorption spectrum for a 4-site chain system v/s energy. <br> - 4_site_inner_contri.npy: Calculated inner sites contribution to the total absorption spectrum for a 4-site chain system v/s energy. <br> - 4_site_total_spectra.npy: Calculated total absorption spectrum for a 4-site chain system v/s energy. </p> <p><br> Figure_3:</p> <p>Panel A:<br> <br> - Mean_Error_Edge.npy: Mean error for the edge case v/s number of trajectories.<br> - Mean_Error_Inner.npy: Mean error for the inner case v/s number of trajectories.<br> - Mean_Error_SS.npy: Mean error for a single site initial condition v/s number of trajectories.<br> - Mean_Error_GD.npy: Mean error for a 4-site chain system with Gaussian distributed site energies v/s number of trajectories.</p> <p>Panel B: </p> <p> - Scaled_error_SS.npy: Mean error for a single site initial condition normalized by the square-root of one v/s number of trajectories.<br> - Scaled_error_PS.npy: Mean error for a pair site initial condition normalized by the square-root of two v/s number of trajectories.<br> - Scaled_error_AS.npy: Mean error for an all site initial condition normalized by the square-root of four v/s number of trajectories.</p> <p>Figure_4: </p> <p>Panel_A:</p> <p> - List_Error.npy: Calculated mean error for a 4-site chain for a set of auxiliary error bounds.</p> <p>Panel_B:</p> <p> - Cw_4S_HOPS.npy: Absorption spectrum for a 4-site chain calculated using dyadic HOPS v/s energy.<br> - Cw_4S_DadHOPS.npy: Absorption spectrum for a 4-site chain calculated using DadHOPS v/s energy.</p> <p>Panel_C: </p> <p> - Cw_12S_DadHOPS.npy: Absorption spectrum for a 12-site chain calculated using DadHOPS without including state adaptivity v/s energy.<br> - Cw_12S_DadHOPS_SA.npy: Absorption spectrum for a 12-site chain calculated using DadHOPS with state adaptivity v/s energy.</p> <p>Panel_D:</p> <p> - Aux_states_DadHOPS.npy: Number of auxiliary states required to run a DadHOPS calculation for each N-pigment system.<br> - Aux_states_HOPS.npy: Number of auxiliary states required to run a dyadic HOPS calculation for each N-pigment system.<br> - N_states_DadHOPS.npy: Number of site states required to run a DadHOPS calculation for each N-pigment system.<br> - N_states_HOPS.npy: Number of site states required to run a dyadic HOPS calculation for each N-pigment system.<br> </p> <p>Figure_5:<br> <br> Panel_C: </p> <p> - PSI_Cw_HEOM.npy: PSI absorption spectrum calculated using HEOM v/s energy.<br> - PSI_Cw_HOPS.npy: PSI absorption spectrum calculated using dyadic HOPS v/s energy.</p> <p>Panel_D:</p> <p> - PSI_Error_Random.npy: Calculated mean error, where clusters of 4 were assigned randomly v/s number of trajectories.<br> - PSI_Error_Coupling.npy: Calculated mean error, where clusters of 4 were assigned based on electronic coupling values v/s number of trajectories.</p> <p><br> Figure_6:</p> <p>Panel_A:</p> <p> - PBI_Exp_data_dil.npy: Experimental data for a dilute solution of PBI v/s energy.<br> - PBI_Cw_DadHOPS_300.npy: Calculated spectrum for a PBI monomer with the spread in static disorder of value 300 cm^{-1} v/s energy.<br> - PBI_Cw_DadHOPS_400.npy:: Calculated spectrum for a PBI monomer with the spread in static disorder of value 400 cm^{-1} v/s energy.</p> <p>Panel_B:</p> <p> - PBI_Exp_data_conc.npy: Experimental data for a concentrated solution of PBI v/s energy.<br> - PBI_trimer_Cw_DadHOPS.npy: Calculated spectrum for a PBI trimer using DadHOPS v/s energy.</p> <p>Panel_C: </p> <p> - Cw_PBI_monomer.npy: Calculated spectrum for a PBI monomer using DadHOPS v/s energy.<br> - Cw_PBI_dimer.npy: Calculated spectrum for a PBI dimer using DadHOPS v/s energy.<br> - Cw_PBI_trimer.npy: Calculated spectrum for a PBI trimer using DadHOPS v/s energy.<br> - Cw_PBI_heptamer.npy: Calculated spectrum for a PBI heptamer using DadHOPS v/s energy.<br> - Cw_PBI_1000mer.npy: Calculated spectrum for a PBI 1000mer using DadHOPS v/s energy.</p> <p>Panel_D:</p> <p> - peak_00_position.npy: relative position of the 00 peak for different number of pigments.<br> - peak_00_position_1000.npy: relative position of the 0,0 peak for a system with 1000 pigments. (Single value file)<br> - peak_I_ratio.npy: ratio of intensities of peak 0,1 w.r.t peak 0,0 for different number of pigments.<br> - peak_I_ratio_1000.npy: ratio of intensities of peak 0,1 w.r.t peak 0,0 for a system with 1000 pigments. (Single value file)</p> <p><br> Figure_7:</p> <p> - PBI_N_states_DadHOPS.npy: Number of states required to run a DadHOPS calculation for each N-PBI molecules system. <br> - PBI_Aux_states_HOPS.npy: Number of auxiliary states required to run a dyadic HOPS calculation for each N-PBI molecules system. <br> - PBI_Aux_states_DadHOPS.npy: Number of auxiliary states required to run a DadHOPS calculation for each N-PBI molecules system. </p> <p>The packaged scripts may be run with Python 3.10 and the associated versions of the os, numpy, and matplotlib packages. <br> </p>
Optical Properties of Concentric Nanorings of Quantum Emitters
<p>A ring of sub-wavelength spaced dipole-coupled quantum emitters features extraordinary optical properties when compared to a one-dimensional chain or a random collection of emitters. One finds the emergence of extremely subradiant collective eigenmodes similar to an optical resonator, which feature strong 3D sub-wavelength field confinement near the ring. Motivated by structures commonly appearing in natural light-harvesting complexes (LHCs), we extend these studies to stacked multi-ring geometries. We predict that using double rings allows us to engineer significantly darker and better confined collective excitations over a broader energy band compared to the single-ring case. These enhance weak field absorption and low-loss excitation energy transport. For the specific geometry of the three rings appearing in the natural LH2 light-harvesting antenna, we show that the coupling between the lower double-ring structure and the higher energy blue-shifted single ring is very close to a critical value for the actual size of the molecule. This creates collective excitations with contributions from all three rings, which is a vital ingredient for efficient and fast coherent inter-ring transport. This geometry thus should also prove useful for the design of sub-wavelength weak field antennae.</p>
A 1km experimental dataset for the Mediterranean terrestrial region of Soil Moisture, Land Surface Temperature and Vegetation Optical Depth from passive microwave data
<p> </p> <p>A 1km experimental dataset for the Mediterranean terrestrial region of Soil Moisture, Land Surface Temperature and Vegetation Optical Depth from passive microwave data.</p> <p>Introduction</p> <p>This dataset is the Planet Labs PBC (VanderSat B.V.) contribution to the ESA 4DMED hydrology project (<a href="https://www.4dmed-hydrology.org/">https://www.4dmed-hydrology.org/</a>). It includes Soil Moisture, Land Surface Temperature and Vegetation Optical Depth for the 4DMED spatial domain and time period (2015-2021) at 1km pixel size. If you use the data please include the following reference:</p> <blockquote> <p>Jaap Schellekens, Tessa Kramer, Michel van Klink, Robin van der Schalie, Yoann Malbeteau, Arjan Geers, Richard de Jeu. (2022) <em>A 1km experimental dataset for the Mediterranean terrestrial region of Soil Moisture, Land Surface Temperature and Vegetation Optical Depth from passive microwave data</em>. DOI: 10.5281/zenodo.7684993. Planet Labs PBC/VanderSat B.V., ESA Contract No. 4000136272/21/I-EF</p> </blockquote> <p> </p> <p><em>Figure 1: Average L-Band Soil moisture for 2020 over the 4dmed spatial domain</em></p> <p>Variables and files</p> <p>The dataset consists of the following files and products for the 4DMED domain. Detailed information about the products can also be found at <a href="https://docs.vandersat.com/data_products/soil_water_content/specification.html">docs.vandersat.com</a>:</p> <ul> <li><strong><code>planet-teff-4dmed-V4.0.zip</code></strong> - LST (TEFF) ascending (daytime) and descending (nighttime) <ul> <li><code>TEFF-AMSR2-ASC_V4.0_1000</code> <ul> <li>Land surface temperature daytime (13:30 solar time) at 1 km</li> </ul> </li> <li><code>TEFF-AMSR2-DESC_V4.0_1000</code> <ul> <li>Land surface temperature nighttime (01:30 solar time) at 1 km</li> </ul> </li> </ul> </li> <li><strong><code>planet-teff-qf-4dmed-V4.0.zip</code></strong> - LST (TEFF) quality flags <ul> <li><code>QF-TEFF-AMSR2-ASC_V4.0_1000</code> <ul> <li>Land surface temperature daytime quality flag. <a href="https://docs.vandersat.com/data_products/soil_water_content/data_flags.html">docs.vandersat.com flags</a> and <a href="https://docs.vandersat.com/data_products/soil_water_content/data_flags.html#decoding-a-flag-file-using-python">docs.vandersat.com python example</a></li> </ul> </li> <li><code>QF-TEFF-AMSR2-DESC_V4.0_1000</code> <ul> <li>Land surface temperature daytime quality flag. <a href="https://docs.vandersat.com/data_products/soil_water_content/data_flags.html">docs.vandersat.com flags</a> and <a href="https://docs.vandersat.com/data_products/soil_water_content/data_flags.html#decoding-a-flag-file-using-python">docs.vandersat.com python example</a></li> </ul> </li> </ul> </li> <li><strong><code>planet-vod-4dmed-V4.1.zip</code></strong> - vegetation optical depth C and X band (interpolated from C3S passive soil moisture) <ul> <li><code>VOD_AMSR2_C1_DESC_V41_1000</code> <ul> <li>C1 band Vegetation Optical Depth (nighttime, 01:30 solar time) at 1km (interpolated from 25 km)</li> </ul> </li> <li><code>VOD_AMSR2_X_DESC_V41_1000</code> <ul> <li>X band Vegetation Optical Depth (nighttime, 01:30 solar time) at 1km (interpolated from 25 km)</li> </ul> </li> </ul> </li> <li><strong><code>planet-sm-4dmed-V4.0.zip</code></strong> - All soil moisture products (C1, X and L-band) <ul> <li><code>SM-AMSR2-C1-DESC_V4.0_1000</code> <ul> <li>C1 band soil moisture (nighttime, 01:30 solar time) at 1km</li> </ul> </li> <li><code>SM-AMSR2-X-DESC_V4.0_1000</code> <ul> <li>X band soil moisture (nighttime, 01:30 solar time) at 1km</li> </ul> </li> <li><code>SM-SMAP-L-DESC_V4.0_1000</code> <ul> <li>L band soil moisture (06:00 solar time) at 1km</li> </ul> </li> </ul> </li> <li><strong><code>planet-sm-qf-4dmed-V4.0.zip</code></strong> - Soil moisture quality maps see <a href="https://docs.vandersat.com/data_products/soil_water_content/data_flags.html">https://docs.vandersat.com/data_products/soil_water_content/data_flags.html</a> and <a href="https://docs.vandersat.com/data_products/soil_water_content/data_flags.html#decoding-a-flag-file-using-python">https://docs.vandersat.com/data_products/soil_water_content/data_flags.html#decoding-a-flag-file-using-python</a> <ul> <li><code>QF-SM-AMSR2-C1-DESC_V4.0_1000</code> <ul> <li>C1 band soil moisture (nighttime, 01:30 solar time) at 1km</li> </ul> </li> <li><code>QF-SM-AMSR2-X-DESC_V4.0_1000</code> <ul> <li>X band soil moisture (nighttime, 01:30 solar time) at 1km</li> </ul> </li> <li><code>QF-SM-SMAP-L-DESC_V4.0_1000</code> <ul> <li>L band soil moisture quality flags (06:00 solar time) at 1km</li> </ul> </li> </ul> </li> <li><strong><code>planet-sm-cor-4dmed-V4.0.zip</code></strong> - Yearly correlation maps of soil moisture derived from the difference microwave bands. To be used as an extra quality indicator (for example undetected RFI) or for uncertainty estimation <ul> <li><code>SM-CORR-C1-X-DESC_V4.0_1000</code> - yearly C1 vs X band pearson's correlation maps</li> <li><code>SM-CORR-L-C1-DESC_V4.0_1000</code> - yearly L vs C1 band pearson's correlation maps</li> <li><code>SM-CORR-L-X-DESC_V4.0_1000</code> - yearly L vs X band pearson's correlation maps</li> </ul> </li> <li><strong><code>planet-aux-flags-4dmed-V4.0</code></strong> - Extra flags for frozen soil and bare soil. Determined at 0.25 degree and interpolated to the 4dmed grid <ul> <li><code>QF-SNOWFROZEN-AMSR2-ASC_1000::RD</code> - Frozen soil determined from dayttime data</li> <li><code>QF-SNOWFROZEN-AMSR2-DESC_1000::RD</code> - Frozen soil determined from nighttime data</li> <li><code>QF-BARESOIL-AMSR2-DESC_1000::RD</code> - Bare soil determined from nighttime data</li> <li><code>QF-BARESOIL-AMSR2-ASC_1000::RD</code> - Bare soil determined from daytime data</li> </ul> </li> </ul> <p>All files are archived into one zip file per product group. Each individual netcdf file in the zip file consists of one observation for the whole domain. If you need you can combine the files into one file using the cdo software <a href="https://code.mpimet.mpg.de/projects/cdo">https://code.mpimet.mpg.de/projects/cdo</a> (e.g. <code>cdo -f nc4c mergetime *.nc outfile.nc</code>).</p> <p>License</p> <p>The data for 4DMED is released under the Creative Commons license: CC BY-NC-SA 4.0 (<a href="https://creativecommons.org/licenses/by-nc-sa/4.0/">https://creativecommons.org/licenses/by-nc-sa/4.0/</a>)</p> <ul> <li>Contains modified Copernicus Sentinel data 2015-2021</li> <li>Contains modified JAXA GCOM-W1/AMSR2 data 2015-2021</li> <li>Contains modified SMAP L1B Radiometer data: Piepmeier, J. R., P. Mohammed, J. Peng, E. J. Kim, G. De Amici, J. Chaubell, and C. Ruf. 2020. SMAP L1B Radiometer Half-Orbit Time-Ordered Brightness Temperatures, Version 4,5. Boulder, Colorado USA. NASA National Snow and Ice Data Center Distributed Active Archive Center. doi: <a href="https://doi.org/10.5067/ZHHBN1KQLI20">https://doi.org/10.5067/ZHHBN1KQLI20</a></li> </ul> <p>Contact</p> <p>Jaap Schellekens: <a href="mailto:jaap@planet.com">jaap@planet.com</a></p> <p>Versions</p> <ul> <li>1.0 Initial creation</li> <li>1.1 Adjusted 4DMED Mask. Data itself unchanged but more LST (TEFF) measurements added</li> <li>1.2 Removed VOD and replaced by 25km C3S VOD interpolated to 1km (V4.1)</li> </ul> <p>Further information</p> <p>More information on the data and the flags can be found at <a href="https://docs.vandersat.com/">https://docs.vandersat.com</a> and <a href="https://www.4dmed-hydrology.org/">https://www.4dmed-hydrology.org</a></p> <p>Background publications</p> <p>R.A.M. De Jeu, A.H.A. De Nijs, M.H.W. Van Klink (2016) <em>Method and system for improving the resolution of sensor data</em>, US10643098B2,EP3469516B1, WO2017216186A1</p> <p>De Jeu, R. A., Holmes, T. R., Parinussa, R. M., & Owe, M. (2014). <em>A spatially coherent global soil moisture product with improved temporal resolution</em>. Journal of hydrology, 516, 284-296.</p> <p>Moesinger, L., Dorigo, W., de Jeu, R., van der Schalie, R., Scanlon, T., Teubner, I. and Forkel, M., 2020. <em>The global long-term microwave vegetation optical depth climate archive (VODCA)</em>. Earth System Science Data, 12(1), pp.177-196.</p> <p>Schmidt, L., Forkel, M., Zotta, R.-M., Scherrer, S., Dorigo, W. A., Kuhn-Régnier, A., van der Schalie, R., and Yebra, M.: <em>Assessing the sensitivity of multi-frequency passive microwave vegetation optical depth to vegetation properties, Biogeosciences Discuss.</em> [preprint], <a href="https://doi.org/10.5194/bg-2022-85">https://doi.org/10.5194/bg-2022-85</a>, in review, 2022</p> <p>Van der Schalie, R., de Jeu, R.A.M., Kerr, Y.H., Wigneron, J.P., Rodríguez-Fernández, N.J., Al- Yaari, A., Parinussa, R.M., Mecklenburg, S. and Drusch, M. (2017), <em>The merging of radiative transfer based surface soil moisture data from SMOS and AMSR-E</em>, Remote Sensing of Environment, 189, pp.180-193.</p> <p>van der Vliet, M., van der Schalie, R., Rodriguez-Fernandez, N., Colliander, A., de Jeu, R., Preimesberger, W., Scanlon, T., Dorigo, W., 2020. Reconciling Flagging Strategies for Multi-Sensor Satellite Soil Moisture Climate Data Records. Remote Sensing 12, 3439. <a href="https://doi.org/10.3390/rs12203439">https://doi.org/10.3390/rs12203439</a></p>
SPIRIT Checklist & Model Consent for 'Predicting Acute and Post-Recovery Outcomes in Cerebral Malaria and Other Comas by Optical Coherence Tomography (OCT in CM) – A protocol for an observational cohort study of Malawian children'
<p>This dataset contains the SPIRIT checklist (adapted to a observational trial) and model consent forms for the OCT in CM study protocol. The protocol will be submitted as a paper to Wellcome Open Research.</p>
A genome-wide optical pooled screen reveals regulators of antiviral responses
<p>Supplementary Datasets for "A genome-wide optical pooled screen reveals regulators of antiviral responses"</p> <p><strong>Supplementary Dataset 1. </strong>Mean per-gene extracted features for all channels of genome-wide screen</p> <p><strong>Supplementary Dataset 2. </strong>Features from single cells in secondary antibody screen</p> <p><strong>Supplementary Dataset 3. </strong>Features from single cells in secondary reporter screen</p> <p><strong>Supplementary Dataset 4. </strong>IRF3 translocation scores from primary and secondary IRF3 antibody and IRF3 reporter screens (the latter upon both Sendai virus and VSV infection) and SeV intensity scores from secondary antibody screen.</p> <p><strong>Supplementary Dataset 5. </strong>Peroxisome and Sendai virus feature scores from genome-wide screen</p>
Optical polarimetric, photometric and spectroscopic observations of the TDE AT 2020mot with Nordic Optical Telescope
<p>The dataset contains:</p> <p>1. Polarization data from November 10th, 2020: raw FITS images of the tidal disruption event <a href="https://www.wis-tns.org/object/2020mot">AT 2020mot</a> (polAT2020mot.zip), master bias, master flat-fields (calibs.zip) and raw FITS images of a polarization standard stars (polstandards.zip) that can be used for the instrumental polarization correction.</p> <p>2. The imaging data from February 19th, 2021: raw fits images of the tidal disruption event <a href="https://www.wis-tns.org/object/2020mot">AT 2020mot</a> (imaging.zip) , master bias, master flat-fields (imagingcalibs.zip) and reduced and summed R+i image (TDEsum.fits) that was used to fit the host galaxy profile.</p> <p>3. The spectra from February 19th, 2021: raw fits of the spectra obtained using grisms #7 and #20 (spectroscopy.zip, includes calibration files) and the reduced spectra (TDE.fits).</p> <p>The dataset was obtained with the Nordic Optical Telescope (NOT).</p>
Bio-Optic bio-shortwave model code, initial conditions, river and boundary forcing for "Estimating the seaonal impact of optically significant water constituents on surface heating rates in the Western Baltic Sea" paper.
<p>Bio-Optic bio-shortwave model code, initial conditions, river and boundary forcing as well as selected model output used for analysis and producing figures in the paper "Estimating the seaonal impact of optically significant water constituents on surface heating rates in the Western Baltic Sea". Contact Bronwyn Cahill if you have questions at: bronwyn.cahill@io-warnemuende.de</p>
Dataset for magneto-optical spectroscopy of CsPbBr3-based perovskite nanoplatelets
<p>This dataset includes raw photoluminescence and transmission spectra acquired in a pulsed magnetic field. The values of the magnetic field in each acquisition frame of a given pulse are reported in the corresponding *.dat file. In this file, the three columns relate to the value of the field at the beginning of the acquisition, at the end of the acquisition, and to the magnetic field value averaged over the duration of the acquisition frame. For each pulse, identified as sxx, where xx is an integer from, 30 frames are acquired. The PL spectra are identified explicitly by writing PL in the file name. The transmission spectra do not have any explicit mention. The acquisition time of each frame is 2ms. Measurements carried out in the Voigt configuration are performed in the linear polarization basis. 0d indicates that the polarizer is oriented parallel to the magnetic field vector. 90d indicates that the polarizer is oriented perpendicular to the magnetic field vector. The dataset is organized in three main folders, each conteining data for a given thickness of the colloidal nanoplatelets investigated.</p>
Data files for "Ground state and spectral properties of the doped one-dimensional optical Hubbard-Su-Schrieffer-Heeger model"
<p>This repo contains the relevant data files for the paper D. Banerjee et al., "Ground state and spectral properties of the doped one-dimensional optical Hubbard-Su-Schrieffer-Heeger model". (2023) Preprint: arXiv:2303.10193</p> <p> </p>
Bio-optical observations of the Baltic Sea and coastal areas, 2008-2012
<p>This a dataset of optical-biogeochemical measurement results was collected during 2008-2012 as part of spring and summer cruises with R/V Aranda as well as from flow-through water samples taken with the Ferrybox system on M/S Finnmaid. The majority of observations were made in the Gulf of Finland, Baltic Proper, Archipelago Sea, and Gulf of Bothnia in the Baltic Sea. A number of riverine and inshore observations are also included. The data collection is owned by the Finnish Environment Institute SYKE and made available under a CC-BY-NC licence. </p> <p>Detail on methods and protocols are provided in the following papers </p> <ul> <li>Simis, Stefan GH; Ylöstalo, Pasi; Kallio, Kari Y; Spilling, Kristian; Kutser, Tiitt. 2017. Contrasting seasonality in optical-biogeochemical properties of the Baltic Sea. PLoS One 12(4), e0173357. https://doi.org/10.1371/journal.pone.0173357</li> <li>Ylöstalo, Pasi; Seppälä, Jukka; Kaitala, Seppo; Maunula, Petri; Simis, Stefan. 2016. Loadings of dissolved organic matter and nutrients from the Neva River into the Gulf of Finland–Biogeochemical composition and spatial distribution within the salinity gradient. Marine Chemistry 186, 58-71. https://doi.org/10.1016/j.marchem.2016.07.004</li> </ul> <p>A large number of individuals took part in these bio-optical research cruises over the years. The authors of this dataset are particularly grateful to the contributions by international visitors, students and volunteers taking part in one or more cruises, as well as crew and support staff operating the research vessel and ship-of-opportunity. </p> <p>Variables included in the dataset include: </p> <table> <tbody> <tr> <td>Column name</td> <td>unit/format</td> <td>Description</td> </tr> <tr> <td>Secchi</td> <td>m</td> <td>Secchi disk depth</td> </tr> <tr> <td>AirTemp(38)</td> <td>°C, 01H</td> <td>Air temperature from ship weather channel 38, 1-h average</td> </tr> <tr> <td>SeaTemp(42)</td> <td>°C, 01H</td> <td>Sea temperature from ship weather channel 42, 1-h average</td> </tr> <tr> <td>WindSpeed(92)</td> <td>m/s, 10M</td> <td>Wind speed from ship weather channel 92, 10-min average</td> </tr> <tr> <td>WindDir(96)</td> <td>°, 10M</td> <td>Wind direction from ship weather channel 96, 10-min average</td> </tr> <tr> <td>Salinity(104)</td> <td>PSU, 01H</td> <td>Salinity from ship weather channel 104, 1-h average</td> </tr> <tr> <td>Rel.humid(54)</td> <td>%, 01H</td> <td>Relative humidity from ship weather channel 54, 1-h average</td> </tr> <tr> <td>Chla</td> <td>mg/m3</td> <td>Chlorophyll-a concentration (cold ethanol extraction and calibrated fluorescence)</td> </tr> <tr> <td>TSM_avg</td> <td>mg/L</td> <td>Total Suspended Matter Dry Weight, Average</td> </tr> <tr> <td>OSM_avg</td> <td>mg/L</td> <td>Dry weight of Organic fraction of TSM, Average</td> </tr> <tr> <td>ISM_avg</td> <td>mg/L</td> <td>Dry weight of Inorganic fraction of TSM, Average</td> </tr> <tr> <td>DOC_avg</td> <td>µM</td> <td>Dissolved Organic Carbon concentration, Average</td> </tr> <tr> <td>TDN_avg</td> <td>µM</td> <td>Total Dissolved Nitrogen concentration, Average</td> </tr> <tr> <td>NH4</td> <td>µM</td> <td>Ammonium concentration</td> </tr> <tr> <td>NO32</td> <td>µM</td> <td>Nitrate-Nitrate concentration</td> </tr> <tr> <td>NO2</td> <td>µM</td> <td>Nitrite concentration</td> </tr> <tr> <td>PO4</td> <td>µM</td> <td>Phosphate concentration</td> </tr> <tr> <td>SiO4</td> <td>µM</td> <td>Silicate concentration</td> </tr> <tr> <td>TN</td> <td>µM</td> <td>Total nitrogen concentration</td> </tr> <tr> <td>TP</td> <td>µM</td> <td>Total phosphorous concentration</td> </tr> <tr> <td>pH</td> <td>pH</td> <td>pH value</td> </tr> <tr> <td>Temp_CTD</td> <td>°C</td> <td>Water temperature measured by Seabird CTD on sampling rosette</td> </tr> <tr> <td>Salinity_CTD</td> <td>SSU</td> <td>Salinity measured by Seabird CTD on sampling rosette</td> </tr> <tr> <td>POC</td> <td>µM</td> <td>Particulate Organic Carbon concentration, Average</td> </tr> <tr> <td>PON</td> <td>µM</td> <td>Particulate Organic Nitrogen concentration, Average</td> </tr> <tr> <td>POP</td> <td>µM</td> <td>Particulate Organic Phosphorus concentration, Average (30.973762 g/Mol)</td> </tr> <tr> <td>Turbidity</td> <td>PSU</td> <td>Turbidity</td> </tr> <tr> <td>aCDOM</td> <td>m^-1</td> <td>spectral absorption coefficient of coloured dissolved organic matter</td> </tr> <tr> <td>CloudCover</td> <td>0-1</td> <td>Fraction (0-1) of cloud cover assesed from photos taken in the field.</td> </tr> <tr> <td>Kd</td> <td>m^-1</td> <td>spectral Vertical diffuse downwelling irradiance coefficient</td> </tr> <tr> <td>a_nap</td> <td>m^-1</td> <td>spectral absorption coefficient by non-pigmented fraction of suspended matter</td> </tr> <tr> <td>a_tsm</td> <td>m^-1</td> <td>spectral absorption coefficient by suspened matter</td> </tr> <tr> <td>R0</td> <td>-</td> <td>spectral Subsurface Irradiance Reflectance</td> </tr> <tr> <td>pigments</td> <td>mg/m3</td> <td>Chlorophyll and other pigments extracted and quantified using a combination of calibrated fluorometry and HPLC</td> </tr> </tbody> </table>
Detection of slow-moving landslides from Sentinel-2 optical satellite imagery
<p>Datasets and code associated with recent ESPL publication</p> <p>"Detection of slow-moving landslides through automated satellite monitoring of surface deformation"</p> <p>The three imagery folders are zipped for convenience. The full code is included in the one .m file.</p> <p>Please get in touch with any questions.</p>
Phanus vitreus - wing transparency optics
<p>This record includes raw data underlying the publication entitled "<strong>Multi-scale dissection of wing transparency in the clearwing butterfly <em>Phanus vitreus</em></strong>" by Finet <em>et al.</em> 2023. The data are empirical (reflectance spectra, absorbance spectra, transmittance spectra, contact angles) or output files generated through optical simulations.</p>
Supporting data for: Optical properties of electrochemically gated La1-xSrxCoO3-δ as a topotactic phase-change material
<p>The data included here contain the information necessary to recreate the figures in a manuscript titled "<em>Optical Properties of Electrochemically Gated La<sub>1-x</sub>Sr<sub>x</sub>CoO<sub>3-δ</sub> as a Topotactic Phase-Change Material</em>". The data files include scanning transmission electron microscopy (STEM) images of electrochemically gated La<sub>1-x</sub>Sr<sub>x</sub>CoO<sub>3-δ</sub> (LSCO) films, finite-difference time-domain (FDTD)-simulated electric field and reflectance data for LSCO-based metasurfaces, transfer-matrix model reflectance data for LSCO films on gold substrates, complex refractive index data for LSCO films before and after electrochemical gating, electronic resistivity data for LSCO films before and after electrochemical gating, source-drain current measurements of LSCO films during electrochemical gating, and X-ray diffraction data for LSCO films before and after electrochemical gating.</p>
Dataset of "Ultrafast Transverse Modulation of Free Electrons by Interaction with Shaped Optical Fields"
<p>This upload includes the experimentally measured and theoretically calculated energy-filtered electron spatial distributions and light profiles showing the electron beam modulation via transversely shaped light fields using an external spatial light modulator.</p>
Optimized structures for Optical control of ultrafast structural motion in a fluorescent protein
<p>QM-MM Optimized structures of the<strong> </strong>hydrogen bonding configuration in states A1, A2 and Transition State (TS) between them for rsKiiro protein on ground (s0) and first excited (s1) states. Structures were optimized at PBE0-D3/cc-pVDZ//Amber03 level.</p>
Theoretical and numerical comparison of quantum- and classical embedding models for optical spectra
<p>This repository contains the files for the computational study on "Theoretical and numerical comparison of quantum- and classical embedding models for optical spectra".<br> The repository is organized into different folders as described below:</p> <p>====================================================================================================<br> 1_pna<br> This folder contains the configuration structures for p-nitroaniline extracted from the Molecular Dynamics (MD) simulations in *.xyz format that were used for any further calculations.<br> ====================================================================================================<br> 2_pftaa<br> This folder contains the configuration structures for pentameric formyl thiophene acetic acid extracted from the Molecular Dynamics (MD) simulations in *.xyz format that were used for any further calculations.<br> ====================================================================================================</p> <p><br> We acknowledge funding by the German Research Foundation (DFG) through the Emmy Noether Young Group Leader Programme (CK, project KO 5423/1-1), The Villum Foundation, Young Investigator Program (EDH, grant no. 29412), the Swedish Research Council (EDH, grant no. 2019-04205), and Independent Research Fund Denmark (EDH, grant no. 0252-00002B and grant no. 2064-00002B) for support.<br> </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.