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3,886 results for “RAPID”
Trophic cascade driven by behavioural fine-tuning as naïve prey rapidly adjust to a novel predator
<p>The arrival of novel predators can trigger trophic cascades driven by shifts in prey numbers. Predators also elicit behavioural change in prey populations, via phenotypic plasticity and/or rapid evolution, and such changes may also contribute to trophic cascades. Here we document rapid demographic and behavioural changes in populations of a prey species (grassland melomys <em>Melomys burtoni</em>, a granivorous rodent) following the introduction of a novel marsupial predator (northern quoll <em>Dasyurus hallucatus</em>). Within months of quolls appearing, populations of melomys exhibited reduced survival and population declines relative to control populations. Quoll-invaded populations (<em>n </em>= 4) were also significantly shyer than nearby, quoll-free populations (<em>n </em>= 3) of conspecifics. This rapid but generalised response to a novel threat was replaced over the following two years with more threat-specific antipredator behaviours (i.e. predator-scent aversion). Predator-exposed populations, however, remained more neophobic than predator-free populations throughout the study. These behavioural responses manifested rapidly in changed rates of seed predation by melomys across treatments. Quoll-invaded melomys populations exhibited lower per-capita seed take rates, and rapidly developed an avoidance of seeds associated with quoll scent, with discrimination playing out over a spatial scale of tens of metres. Presumably the significant and novel predation pressure induced by quolls drove melomys populations to fine-tune behavioural responses to be more predator-specific through time. These behavioural shifts could reflect individual plasticity (phenotypic flexibility) in behaviour or may be adaptive shifts from natural selection imposed by quoll predation. Our study provides a rare insight into the rapid ecological and behavioural shifts enacted by prey to mitigate the impacts of a novel predator and shows that trophic cascades can be strongly influenced by behavioural as well as numerical responses.</p>
Data and scripts related to: Rapid coordination of effective learning by the human hippocampus
<p>This data set contains intracranial EEG data (ASCII format), eye-tracking data from an EyeLink 1000 remote system (edf format), behavioral data, and MATLAB code to reproduce the analyses reported in the manuscript, “Rapid coordination of effective learning by the human hippocampus” published in <em>Science Advances.</em></p> <p>The file <strong>KragelEtal21_SciAdv.zip</strong> contains the raw data divided into folders according to content type, for each of the six participants in the study, and the MATLAB code necessary to reproduce all analyses. MATLAB live scripts provide examples of how to reproduce the main analyses reported in the manuscript.</p> <p>External datasets:</p> <p>In addition to the dataset provided here, three open-access datasets are analyzed in the manuscript.</p> <p> - The <a href="http://figrim.mit.edu/">FIGRIM Dataset</a> contains eye-tracking data during a continuous recognition task.</p> <p> - Two additional eye-tracking datasets during free viewing of repeated scenes are provided in “<a href="https://datadryad.org/stash/dataset/doi:10.5061/dryad.9pf75">An extensive dataset of eye movements during viewing of complex images</a>,” namely the Memory I and Memory II datasets.</p> <p>To reproduce region of interest analyses outside of the hippocampus, both the seven-network cortical parcellation developed by <a href="https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation_Yeo2011">Yeo, Krienen et al.</a>, and the <a href="https://identifiers.org/neurovault.image:1702">Harvard-Oxford cortical atlas</a> are required.</p> <p>Stimuli:</p> <p>The scenes used in this study are part of <a href="https://cocodataset.org">Microsoft COCO</a>. Scenes were selected from the 2017 Train images. Image identifiers are maintained.</p> <p>Salience model:</p> <p>To reproduce analyses that consider the visual salience of each scene, DeepGaze II model predictions for each stimulus are required. Tensorflow models and a Jupyter notebook demonstrating their use are available for <a href="https://deepgaze.bethgelab.org/">download</a>.</p> <p>Software dependencies:</p> <p>The code in this project was developed using MATLAB r2017b. The following external packages are required for code execution. Some external packages are included in the repository.</p> <p>- fieldtrip (<a href="https://github.com/fieldtrip/fieldtrip">https://github.com/fieldtrip/fieldtrip</a>)<br> - spm12 (<a href="https://github.com/spm/spm12">https://github.com/spm/spm12</a>)<br> - BOSC (<a href="https://doi.org/10.1016/j.neuroimage.2010.08.064">https://doi.org/10.1016/j.neuroimage.2010.08.064</a>)<br> - Edf2Mat (<a href="https://github.com/uzh/edf-converter">https://github.com/uzh/edf-converter</a>)<br> - boundedline (<a href="https://github.com/kakearney/boundedline-pkg">https://github.com/kakearney/boundedline-pkg</a>)<br> - export_fig (https://github.com/altmany/export_fig)</p> <p>License:</p> <p>The included code is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or any later version. See the file COPYING for more details. The release of this software includes functions from other toolboxes that are covered under their respective licenses.</p>
Brachypodium distachyon images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p>Brachypodium distachyon images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Euphorbia peplus images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p>Euphorbia peplus images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Arabidopsis thaliana images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Arabidopsis thaliana</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Oryza sativa images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Oryza sativa</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Solanum lycopersicum images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Solanum lycopersicum</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
Ocimum basilicum images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE et al.
<p><em>Ocimum basilicum</em> images used in the paper entitled "Led Color Gradient As A New Screening Tool For Rapid Phenotyping Of Plant Responses To Light Quality" by Pierre LEJEUNE, Anthony FRATAMICO, Frédéric BOUCHÉ, Samuel HUERGA-FERNÁNDEZ, Pierre TOCQUIN, Claire PÉRILLEUX</p>
RAPID input and output files corresponding to "RAPID Applied to the SIM-France Model"
<p><strong>Corresponding peer-reviewed publication</strong></p> <p>This dataset corresponds to all the RAPID input and output files that were used in the study reported in:</p> <ul> <li>David, Cédric H., Florence Habets, David R. Maidment and Zong-Liang Yang (2011), RAPID applied to the SIM-France model, Hydrological Processes, 25(22), 3412-3425. DOI: 10.1002/hyp.8070. </li> </ul> <p> </p> <p>When making use of any of the files in this dataset, please cite both the aforementioned article and the dataset herein. </p> <p> </p> <p><strong>Time format</strong></p> <p>The times reported in this description all follow the ISO 8601 format. For example 2000-01-01T16:00-06:00 represents 4:00 PM (16:00) on Jan 1<sup>st</sup> 2000 (2000-01-01), Central Standard Time (-06:00). Additionally, when time ranges with inner time steps are reported, the first time corresponds to the beginning of the first time step, and the second time corresponds to the end of the last time step. For example, the 3-hourly time range from 2000-01-01T03:00+00:00 to 2000-01-01T09:00+00:00 contains two 3-hourly time steps. The first one starts at 3:00 AM and finishes at 6:00AM on Jan 1<sup>st</sup> 2000, Universal Time; the second one starts at 6:00 AM and finishes at 9:00AM on Jan 1<sup>st</sup> 2000, Universal Time.</p> <p> </p> <p><strong>Data sources</strong></p> <p>The following sources were used to produce files in this dataset:</p> <ul> <li>The hydrographic network of SIM-France, as published in Habets, F., A. Boone, J. L. Champeaux, P. Etchevers, L. Franchistéguy, E. Leblois, E. Ledoux, P. Le Moigne, E. Martin, S. Morel, J. Noilhan, P. Quintana Seguí, F. Rousset-Regimbeau, and P. Viennot (2008), The SAFRAN-ISBA-MODCOU hydrometeorological model applied over France, Journal of Geophysical Research: Atmospheres, 113(D6), DOI: 10.1029/2007JD008548.</li> <li>The observed flows are from Banque HYDRO, Service Central d’Hydrométéorologie et d’Appui à la Prévision des Inondations. Available at http://www.hydro.eaufrance.fr/index.php.</li> <li>Outputs from a simulation using SIM-France (Habets et al. 2008). The simulation was run by Florence Habets, and produced 3-hourly time steps from 1995-08-01T00:00+02:00 to 2005-07-31T21:02+00:00. Further details on the inputs and options used for this simulation are provided in David et al. (2011).</li> </ul> <p> </p> <p><strong>Software</strong></p> <p>The following software were used to produce files in this dataset:</p> <ul> <li>The Routing Application for Parallel computation of Discharge (RAPID, David et al. 2011, http://rapid-hub.org), Version 1.1.0. Further details on the inputs and options used for this series of simulations are provided below and in David et al. (2011).</li> <li>ESRI ArcGIS (http://www.arcgis.com). </li> <li>Microsoft Excel (https://products.office.com/en-us/excel). </li> <li>The GNU Compiler Collection (https://gcc.gnu.org) and the Intel compilers (https://software.intel.com/en-us/intel-compilers). </li> </ul> <p> </p> <p><strong>Study domain</strong></p> <p>The files in this dataset correspond to one study domain:</p> <ul> <li>The river network of SIM-France is made of 24264 river reaches. The temporal range corresponding to this domain is from 1995-08-01T00:00+02:00 to 2005-07-31 T21:00+02:00.</li> </ul> <p> </p> <p><strong>Description of files </strong></p> <p>All files below were prepared by Cédric H. David, using the data sources and software mentioned above. </p> <ul> <li><em>rapid_connect_France.csv.</em> This CSV file contains the river network connectivity information and is based on the unique IDs of the SIM-France river reaches (the IDs). For each river reach, this file specifies: the ID of the reach, the ID of the unique downstream reach, the number of upstream reaches with a maximum of four reaches, and the IDs of all upstream reaches. A value of zero is used in place of NoData. The river reaches are sorted in increasing value of ID. The values were computed based on the SIM-France FICVID file. This file was prepared using a Fortran program.</li> <li><em>m3_riv_France_1995_2005_ksat_201101_c_zvol_ext.nc. </em>This netCDF file contains the 3-hourly accumulated inflows of water (in cubic meters) from surface and subsurface runoff into the upstream point of each river reach. The river reaches have the same IDs and are sorted similarly to <em>rapid_connect_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 2005/07/31T21:00+02:00. The values were computed using the outputs of SIM-France. This file was prepared using a Fortran program.</li> <li><em>kfac_modcou_1km_hour.csv.</em> This CSV file contains a first guess of Muskingum k values (in seconds) for all river reaches. The river reaches have the same IDs and are sorted similarly to <em>rapid_connect_France.csv</em>. The values were computed based on the following information: ID, size of the side of the grid cell, Equation (5) in David et al. (2011), and using a wave celerity of 1 km/h. This file was prepared using a Fortran program.</li> <li><em>kfac_modcou_ttra_length.csv. </em>This CSV file contains a second guess of Muskingum k values (in seconds) for all river reaches. The river reaches have the same IDs and are sorted similarly to <em>rapid_connect_France.csv</em>. The values were computed based on the following information: ID, size of the side of the grid cell, travel time, and Equation (9) in David et al. (2011).</li> </ul> <ul> <li><em>k_modcou_0.csv.</em> This CSV file contains Muskingum k values (in seconds) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on the following information: <em>kfac_modcou_1km_hour.csv </em>and using Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> </ul> <ul> <li><em>k_modcou_1.csv.</em> This CSV file contains Muskingum k values (in seconds) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on the following information: <em>kfac_modcou_1km_hour.csv </em>and using Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>k_modcou_2.csv. </em>This CSV file contains Muskingum k values (in seconds) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on the following information: <em>kfac_modcou_1km_hour.csv </em>and using Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>k_modcou_3.csv. </em>This CSV file contains Muskingum k values (in seconds) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on the following information: <em>kfac_modcou_1km_hour.csv </em>and using Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>k_modcou_4.csv. </em>This CSV file contains Muskingum k values (in seconds) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on the following information: <em>kfac_modcou_1km_hour.csv </em>and using Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>k_modcou_a.csv. </em>This CSV file contains Muskingum k values (in seconds) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on the following information: <em>kfac_modcou_1km_hour.csv </em>and using Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>k_modcou_b.csv. </em>This CSV file contains Muskingum k values (in seconds) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on the following information: <em>kfac_modcou_1km_hour.csv </em>and using Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>k_modcou_c.csv. </em>This CSV file contains Muskingum k values (in seconds) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on the following information: <em>kfac_modcou_1km_hour.csv </em>and using Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>x_modcou_0.csv.</em> This CSV file contains Muskingum x values (dimensionless) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>x_modcou_1.csv.</em> This CSV file contains Muskingum x values (dimensionless) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>x_modcou_2.csv.</em> This CSV file contains Muskingum x values (dimensionless) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>x_modcou_3.csv.</em> This CSV file contains Muskingum x values (dimensionless) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>x_modcou_4.csv.</em> This CSV file contains Muskingum x values (dimensionless) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>x_modcou_a.csv.</em> This CSV file contains Muskingum x values (dimensionless) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>x_modcou_b.csv.</em> This CSV file contains Muskingum x values (dimensionless) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>x_modcou_c.csv.</em> This CSV file contains Muskingum x values (dimensionless) for all river reaches. The river reaches have the same COMIDs and are sorted similarly to <em>rapid_connect_San_Guad.csv</em>. The values were computed based on Table (2) in David et al. (2011). This file was prepared using a Fortran program.</li> <li><em>rivsurf_France.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the SIM-France domain. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_adour.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Adour River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_allier.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Allier River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_ardeche.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Ardeche River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_dordogne.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Dordogne River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_garonne.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Garonne River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_garonne_reste.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Garonne River Basin, downstream. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_garonneariege.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Garonne and Ariege River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_herault.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Herault River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_loir.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Loir River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_loire.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Loire River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_loire_amont_nevers.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Loire River Basin, upstream. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_loire_reste.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Loire River Basin, downstream. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_lot.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Lot River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_meuse.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Meuse River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_oise.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Oise River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_rhone.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Rhone River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_rhone_reste.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Rhone River Basin, downstream. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_rhone_suisse.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Rhone River Basin, upstream. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_saone.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Saone River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_seine.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Seine River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_seine_amont.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Seine River Basin, upstream. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_seine_reste.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Seine River Basin, downstream. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_tarn.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Tarn River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>rivsurf_vienne.csv. </em>This CSV file contains the list of unique IDs of SIM-France river reaches in the Vienne River Basin. The river reaches are sorted from upstream to downstream. The values were computed using the ID field. This file was prepared using Excel.</li> <li><em>Qout_France_201101_c_zvol_ext_3653days_p1_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 2005-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_3653days_p2_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 2005-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_3653days_p3_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 2005-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_3653days_p4_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 2005-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_3653days_pa_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 2005-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_3653days_pb_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 2005-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_3653days_pc_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 2005-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_366days_p0_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 1996-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_366days_pb_dtR1800s.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 1996-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>Qout_France_201101_c_zvol_ext_366days_pb_dtR1800s_pougny.nc. </em>This netCDF file contains the 3-hourly averaged outputs (in cubic meters per second) from RAPID corresponding to the downstream point of each reach. The river reaches have the same IDs and are sorted similarly to <em>rivsurf_France.csv</em>. The time range for this file is from 1995-08-01T00:00+02:00 to 1996-07-31-21:00+02:00. The values were computed using the Muskingum method with parameters of Table (2) in David et al. (2011). This file was prepared using RAPID v1.1.0 running with the preonly ILU solver on one core.</li> <li><em>gage_id_1995_1996_full.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and with full daily data record. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>gage_id_1995_1996_full_nash.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and with full daily data record and for which RAPID simulations led to a positive efficiency value. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>gage_id_1995_2005_70.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and with 70% daily data record. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 2005-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>Qobs_1995_1996_full.csv. </em>This CSV file contains daily averaged measured stream flow (in cubic meters per second). The river reaches have the same IDs and are sorted similarly to <em>gage_id_1995_1996_full.csv</em>. The time range for the daily values is from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID, and the observations from SCHAPI. This file was prepared using a Fortran program and Excel.</li> <li><em>Qobs_1995_1996_full_nash.csv. </em>This CSV file contains daily averaged measured stream flow (in cubic meters per second). The river reaches have the same IDs and are sorted similarly to <em>gage_id_1995_1996_full_nash.csv</em>. The time range for the daily values is from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID, and the observations from SCHAPI. This file was prepared using a Fortran program and Excel.</li> <li><em>Qobs_1995_1996_full_nash_93.csv. </em>This CSV file contains daily averaged measured stream flow (in cubic meters per second). The river reaches have the same IDs and are sorted similarly to <em>gage_id_1995_1996_full_nash.csv</em>. The time range for the daily values is from 1995-11-01T00:00+02:00 to 2005-07-31T21:00+02:00. The values were computed using the following field: ID, and the observations from SCHAPI. This file was prepared using a Fortran program and Excel.</li> <li><em>Qobs_1995_2005_70.csv. </em>This CSV file contains daily averaged measured stream flow (in cubic meters per second). The river reaches have the same IDs and are sorted similarly to <em>gage_id_1995_2005_70.csv</em>. The time range for the daily values is from 1995-08-01T00:00+02:00 to 2005-07-31T21:00+02:00. The values were computed using the following field: ID, and the observations from SCHAPI. This file was prepared using a Fortran program and Excel.</li> <li><em>Qobsbarrec_1995_1996_full_nash.csv. </em>This CSV file contains the reciprocal of the averaged measured stream flow (in cubic meters per second). The river reaches have the same IDs and are sorted similarly to <em>gage_id_1995_1996_full_nash.csv</em>. The time range for the computation of the average is from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID, and the observations from SCHAPI. This file was prepared using a Fortran program and Excel.</li> <li><em>forcingtot_id_1995_1996_full.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and used as forcing instead of RAPID simulations for the SIM-France domain. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>forcinguse_id_garonne_reste.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and used as forcing instead of RAPID simulations for the Garonne River Basin, downstream. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>forcinguse_id_loire_reste.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and used as forcing instead of RAPID simulations for the Loire River Basin, downstream. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>forcinguse_id_rhone_pougny.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and used as forcing instead of RAPID simulations for the Rhone River Basin, downstream of Lake Geneva. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>forcinguse_id_rhone_reste.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and used as forcing instead of RAPID simulations for the Rhone River Basin, downstream. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>forcinguse_id_seine_reste.csv. </em>This CSV file contains the list of IDs of rivers containing SCHAPI gauges and used as forcing instead of RAPID simulations for the Seine River Basin, downstream. The river reaches are sorted in increasing value of ID. The time range used for determining a full record is daily from 1995-08-01T00:00+02:00 to 1996-07-31T21:00+02:00. The values were computed using the following field: ID. This file was prepared using a Fortran program, and Excel.</li> <li><em>Qfor_1995_1996_full.csv. </em>This CSV file is identical to <em>Qobs_1995_1996_full.csv.</em></li> <li><em>Qfor_1995_1996_full_93.csv. </em>This CSV file is identical to <em>Qobs_1995_1996_full_nash_93.csv.</em></li> <li><em>Qinit_93.csv. </em>This CSV file contains the final state of RAPID after a simulation ending on 1995-11-31T00:00+02:00</li> </ul> <p> </p> <p><strong>Known bugs and limitations in this dataset or the associated manuscript.</strong></p> <p>A small bug in RAPID v1.1.0 was discovered and fixed on 2011-07-16 that had an impact on the optimization of parameters when using forcing data to replace upstream simulations. This bug led to erroneous results for only two of the basins where upstream forcing was used: Garonne River Basin, downstream; and Rhone River Basin, downstream. The bug had no influence on: Loire River Basin, downstream, and Seine River Basin, downstream; or on any of the other simulations. This should not affect the conclusions of David et al. (2011) since only a few locations were impacted. </p> <p> </p> <p><strong>Funding</strong></p> <p>This work was partially supported by the French Mines Paristech, by the French Agence Nationale de la Recherche under the Vulnérabilité de la nappe du Rhin (VulNaR) project, by the French Programme Interdisciplinaire de Recherche sur l’Environnement de la Seine (PIREN-Seine) project, by the U.S. National Aeronautics and Space Administration under the Interdisciplinary Science Project NNX07AL79G, by the U.S. National Science Foundation under project EAR-0413265: CUAHSI Hydrologic Information Systems, and by the American Geophysical Union under a Horton (Hydrology) Research Grant.</p>
Data set to article "Rapid serial processing of natural scenes: Color modulates detection but neither recognition nor the attentional blink"
<p>The file Data_Marxetal2014_AB.csv contains the data to the paper<br> Marx, S., Hansen-Goos, O., Thrun, M., & Einhäuser, W. (2014). Rapid serial processing of natural scenes: Color modulates detection but neither recognition nor the attentional blink. Journal of Vision, 14(14):4, 1-18, http://www.journalofvision.org/content/14/14/4, doi:10.1167/14.14.4.<br> as comma-separated value (csv) file</p> <p>Each row contains the data of one trial, represented by the following columns</p> <p>1 - number of the line<br> 2 - subject ID<br> 3 - experiment number<br> 4 - color condition (1: gray inverted, 2: gray original, 3: color inverted, 4: color original)<br> 5 - number of targets<br> 6 - SOA in ms<br> 7 - serial position of first target (0 if absent)<br> 8 - serial position of second target (0 if absent)<br> 9 - category of first target (1: feline, 2: avian, 3: ungulate, 4: canine)<br> 10 - category of second target (1: feline, 2: avian, 3: ungulate, 4: canine)<br> 11 - response to "How many animals?" (detection)<br> 12 - response to first category (recognition, 1: feline, 2: avian, 3: ungulate, 4: canine)<br> 13 - response to second category (recognition, 1: feline, 2: avian, 3: ungulate, 4: canine)</p>
Human auditory ecology : Extending hearing research to the perception of natural soundscapes by humans in rapidly-changing environments
<p>The audiomaterial corresponding to boreal, tropical and temperate forests, desert, savannah, sub-alpine meadow, and the construction site in New York is copyrighted (license from Wild Sanctuary) and cannot be used without explicit agreement of Bernie Krause. Additional audiomaterial (urban park and street traffic in Paris, France; fast street traffic in Marseille, France; English and French speech material) may only be used with the explicit agreement of the following authors: Jérôme Sueur and Sylvain Haupert (Museum National d'Histoire Naturelle in Paris, France); Sabine Meunier (LMA/CNRS in Marseille, France); Franck Ramus (CNRS in Paris, France) (see Figure legends).</p>
Data and configuration files for "Expansion of accreting main-sequence stars during rapid mass transfer"
<p>Data and configuration files that can be used to reproduce results from the paper <a href="https://ui.adsabs.harvard.edu/abs/2024ApJ...966L...7L/abstract">Expansion of Accreting Main-sequence Stars during Rapid Mass Transfer</a>. This directory contains MESA inlists and starting models used for calculations performed with MESA r15140, and YAML configuration files for calculations performed with COMPAS v02.41.04.</p> <p>See README.txt for a description of all files.</p> <p> </p> <p>Any work making use of these files should cite</p> <p>Lau, M., Hirai, R., Mandel, I., Tout, C., 2024, Expansion of Accreting Main-sequence Stars during Rapid Mass Transfer, ApJL, 966, 1</p> <div></div>
Range expansion is slower and more variable with rapid evolution across a spatial gradient in temperature
<p><span>Rapid evolution in colonizing populations can alter our ability to predict future range expansions. Recent theory suggests that the dynamics of replicate range expansions are less variable, and hence more predictable, with increased selection at the expanding range front. Here, we test whether selection from environmental gradients across space produces more consistent range expansion speeds, using the experimental evolution of replicate duckweed populations colonizing landscapes with and without a temperature gradient. We found that range expansion across a temperature gradient was slower on average, with range-front populations displaying higher population densities, and genetic signatures and trait changes consistent with directional selection. Despite this, we found that with a spatial gradient range expansion speed became more variable and less consistent among replicates over time. Our results therefore challenge current theory, highlighting that chance can still shape the genetic response to selection to influence our ability to predict range expansion speeds.</span></p>
Rapid Fabrication of Membrane-IntegratedThermoplastic Elastomer Microfluidic Devices
<p>Txt files contain experimental data sets used to obtain the results of Fig. 3 and 4 and the OB1 code. Data files for Fig 3. are named GapSize_membraneConfiguration_#_delaminationPressure and data files for Fig 4. Are named agingTime_membraneConfiguration_incubationCondition_#.</p>
Rapid Landslide Risk Zoning toward Multi-Slope Units of the Neikuihui Tribe for Preliminary Disaster Management repository
<p> Taiwan features steep terrain and a fragile geology environment accompanied by frequent earthquakes and typhoons annually. Meanwhile, with the booming economy and rapid population growth, activities pivot from metropolises to the Taiwan's suburban and mountain areas. However, for example, the Neikuihui tribe in northern Taiwan evolves landslide disasters during extreme rainfall events. To rapidly examine landslide risk in the tribe area for preliminary disaster management, the well-known principle of Risk, which comprises Hazard, Exposure, and Vulnerability, was carefully adapted to scrutinize 14 slope units around the Neikuihui tribe region. The framework of risk zoning is improved based on the previous quantified findings regarding the inventory of the deep-seated landslides in southern Taiwan. Moreover, the proposed procedures comprehensively assess susceptibility, activity, exposure, and vulnerability of each slope unit. The rapid risk zoning analysis of multi-slope units delivers a sloping unit with a high level of landslide risk, and this slope unit did suffer from landslide disasters in the 2016 typhoon event. This study preliminarily proves that the proposed framework and details of rapid risk zoning can help identify a relatively high-risk slope unit around a tribal region and address pre-countermeasures for disaster management.</p>
Data set: Australia's hidden radiation - phylogenomic analysis reveals rapid Miocene radiation of blindsnakes
<p>This repository contains the additional raw data to accompany our paper entitled "Australia’s hidden radiation: phylogenomic analysis reveals rapid Miocene radiation of blind snakes."</p> <p>This project is part of the AusARG Initiative funded by BioPlatforms Australia.</p> <p>Raw sequences data can be downloaded from the BioPlatforms downloads portal: https://data.bioplatforms.com/dataset?q=ticket%3ABPAOPS-1196</p> <p><strong>Information about files</strong></p> <ol> <li>ASTRAL_tree_SqCL_AHE.tre - output from ASTRAL-III just with SqCL data + outgroups</li> <li>ASTRAL_tree_SqCL_AHE_Ramphotyphlops.tre - same with above but also including additional <em>Ramphotyphlops </em>genes.</li> <li>mcmctree_1.txt - mcmcfile output from MCMCTree analysis using all SkewT or SkewNormal distribution priors.</li> <li>mcmctree_2.txt - mcmcfile output from MCMCTree analysis using SkewT, SkewNormal, and cauchy distribution priors. **This is the tree used in our publication**</li> <li>mcmctree_strategy1.tre - output phylogeny 1</li> <li>mcmctree_strategy2.tre - output phylogeny 2</li> <li>IQTREE_gcf_scf.nex - gene concordance and site factors for mcmctree_strategy2.tre</li> </ol> <p>tree_data/ folder contains concatenated gene trees (IQTREE) and corresponding shortcut coalescent method (ASTRAL-III) tree.</p> <p>Should there be questions regarding the code and data set, please contact the corresponding author.</p>
Data set for "Reward-based learning drives rapid sensory signals in medial prefrontal cortex and dorsal hippocampus necessary for goal-directed behavior"
<p>Data set for: Le Merre P, Esmaeili V, Charrière E, Galan K, Salin P-A, Petersen CCH, Crochet S (2018) Reward-based learning drives rapid sensory signals in medial prefrontal cortex and dorsal hippocampus necessary for goal-directed behavior. Neuron, https://doi.org/10.1016/j.neuron.2017.11.031</p> <p>There are 44 files in this data upload:<br> 1. '2018_LeMerre_Neuron.pdf' - this is a pdf version of the online publication.<br> 2. 'Chronic_LFP_data.mat' - this is a Matlab data structure, which contains all the chronic LFP data for the publication.<br> 3. 'Silicon_Probe_data.mat' - this is a Matlab data structure, which contains all the mPFC silicon probe recording data for the publication.<br> 4. 'Opto_Inactivation_data.mat' - this is a Matlab data structure, which contains all the optogenetic inactivation data for the publication.<br> 5. 'Mus_Inactivation_data.mat' - this is a Matlab data structure, which contains all the pharmacological (Muscimol) inactivation data for the publication.<br> 6. 'Learning_Days_Mtrx.mat' - this is a Matlab data file, which contains the selected training days analyzed for the Trained condition in the Detection Task.<br> 7. 'Exposed_Days_Mtrx.mat' - this is a Matlab data file, which contains the selected days analyzed for the Exposed condition in the Neutral Exposure.<br> 8. 'p_value_colormap.mat' - this is a Matlab data file, which contains the color map used to display the p value in the Matlab codes 'plot_fig2A_SEP_D1_vs_Trained.m'; 'plot_fig2B_Amplitude_D1_vs_Trained.m'; 'plot_fig3A_SEP_D1_vs_Exposed.m'; 'plot_fig4A_SEP_H_vs_M.m’.<br> 9. 'p_value_colormap2.mat' - this is a Matlab data file, which contains the color map used to display the p value in the Matlab code 'plot_figS3B_Stim_vs_Catch_for_significantly_inc_dec_units.m’; ’plot_figS4A_H_vs_M_for_inc_dec_units_and_zscored_PSTH.m’.<br> 10. 'scatterplot_colormap.mat' - this is a Matlab data file, which contains the color map used to display the p value in the Matlab code 'plot_fig2C_Scatterplot_Amplitude_vs_dprime.m'.<br> 11. 'SEP_colormtrx.mat' - this is a Matlab data file, which contains the color map used to display the p value in the Matlab code 'plot_fig1B_Sensory_Evoked_Potentials.m'; 'plot_figS3A_SEP_EMG_amplitude_ReactionTime.m'.<br> 12. 'zscore_colormap.mat' - this is a Matlab data file, which contains the color map used to display the p value in the Matlab code 'plot_fig3D_mPFC_PSTH_and_zscore_DT_vs_NE.m'; 'plot_figS4A_H_vs_M_for_inc_dec_units_and_zscored_PSTH.m’.<br> 13. 'Chronic_LFP_dataViewer.fig' - this is a Matlab Figure file, which is the GUI layout for 'Chronic_LFP_dataViewer.m'.<br> 14. 'Chronic_LFP_dataViewer.m' - this is a Matlab code, which displays the data contained in 'Chronic_LFP_data.mat'.<br> 15. 'Silicon_Probe_dataViewer.fig' - this is a Matlab Figure file, which is the GUI layout for 'Silicon_Probe_dataViewer.m'.<br> 16. 'Silicon_Probe_dataViewer.m' - this is a Matlab code, which displays the data contained in 'Silicon_Probe_data.mat'.<br> 17. 'plot_fig1B_Sensory_Evoked_Potentials.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results published in figure 1, panel B (Le Merre et al., 2018).<br> 18. 'plot_fig1C_Silicon_Probe_Hit_trials.m' - this is a Matlab code, which analyses the data in 'Silicon_Probe_data.mat', and displays the results in the same way as the published figure 1, panel C (Le Merre et al., 2018).<br> 19. 'plot_fig2A_SEP_D1_vs_Trained.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure 2, panel A (Le Merre et al., 2018).<br> 20. 'plot_fig2B_Amplitude_D1_vs_Trained.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure 2, panel B (Le Merre et al., 2018).<br> 21. 'plot_fig2C_Scatterplot_Amplitude_vs_dprime.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure 2, panel C (Le Merre et al., 2018).<br> 22. 'plot_fig3A_SEP_D1_vs_Exposed.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure 3, panel A (Le Merre et al., 2018).<br> 23. 'plot_fig3B_Amplitude_D1_vs_Exposed.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure 3, panel B (Le Merre et al., 2018).<br> 24. 'plot_fig3C_ROC_Trained_vs_Exposed.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the ROCs in the same way as the published figure 3, panel C (Le Merre et al., 2018).<br> 25. 'plot_fig3C_ROC_Randomization.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the label shuffled ROCs in the same way as the published figure 3, panel C (Le Merre et al., 2018).<br> 26. 'plot_fig3D_mPFC_PSTH_and_zscore_DT_vs_NE.m' - this is a Matlab code, which analyses the data in 'Silicon_Probe_data.mat', and displays the results in the same way as the published figure 3, panel D (Le Merre et al., 2018).<br> 27. 'plot_fig4A_SEP_H_vs_M.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure 4, panel A (Le Merre et al., 2018).<br> 28. 'plot_fig4B_Amplitude_ H_vs_M.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure 4, panel B (Le Merre et al., 2018).<br> 29. 'plot_fig4C_mPFC_PSTH_Hit_vs_Miss.m' - this is a Matlab code, which analyses the data in 'Silicon_Probe_data.mat', and displays the results in the same way as the published figure 4, panel C, left panel (Le Merre et al., 2018).<br> 30. 'plot_fig4C_Scatterplot_modulation_Hit_vs_Miss.m' - this is a Matlab code, which analyses the data in 'Silicon_Probe_data.mat', and displays the results in the same way as the published figure 4, panel C, right panel (Le Merre et al., 2018).<br> 31. 'plot_fig4D_Photoinhibitions.m' - this is a Matlab code, which analyses the data in 'Opto_Inactivation_data.mat', and displays the results published in figure 4, panel D (Le Merre et al., 2018).<br> 32. 'plot_figS2D_Performance_DetectionTask_NeutralExposition.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure S2, panel D (Le Merre et al., 2018).<br> 33. 'plot_figS3A_SEP_EMG_amplitude_ReactionTime.m' - this is a Matlab code, which analyses the data in 'Chronic_LFP_data.mat', and displays the results in the same way as the published figure S3, panel A (Le Merre et al., 2018).<br> 34. 'plot_figS3B_Stim_vs_Catch_for_significantly_inc_dec_units.m' - this is a Matlab code, which analyses the data in 'Silicon_Probe_data.mat', and displays the results in the same way as the published figure S3, panel B (Le Merre et al., 2018).<br> 35. 'plot_figS4A_H_vs_M_for_inc_dec_units_and_zscored_PSTH.m' - this is a Matlab code, which analyses the data in 'Silicon_Probe_data.mat', and displays the results in the same way as the published figure S4, panel A (Le Merre et al., 2018).<br> 36. 'plot_figS4B_Pharmacological_Inactivations.m' - this is a Matlab code, which analyses the data in 'Mus_Inactivation_data.mat', and displays the results published in figure S4 (Le Merre et al., 2018).<br> 37. 'Load_LFP_Multisite_database.m' - this is a Matlab code, which is called in the Matlab codes that analyze the data in 'Chronic_LFP_data.mat'.<br> 38. 'Load_Silicon_Probe_database.m' - this is a Matlab code, which is called in the Matlab codes that analyze the data in 'Silicon_Probe_data.mat'.<br> 39. 'Load_Optogenetic_Inactivation_database.m' - this is a Matlab code, which is called in the Matlab code that analyzes the data in 'Opto_Inactivation_data.mat'.<br> 40. 'Load_Pharmacological_Inactivation_database.m' - this is a Matlab code, which is called in the Matlab code that analyzes the data in 'Mus_Inactivation_data.mat'.<br> 41. 'bonf_holm.m' - this is a Matlab code developed by D. M. Groppe, which is called in the Matlab code 'plot_figS4B_Pharmacological_Inactivations.m':<br> https://ch.mathworks.com/matlabcentral/fileexchange/28303-bonferroni-holm-correction-for-multiple-comparisons<br> 42. 'boundedline.m' - this is a Matlab code developed by K. Kearney, which is called in the Matlab codes 'plot_fig1C_Silicon_Probe_Hit_trials.m'; 'plot_fig2A_SEP_D1_vs_Trained.m'; 'plot_fig3A_SEP_D1_vs_Exposed.m’; 'plot_fig3C_ROC_Trained_vs_Exposed.m'; 'plot_fig3D_mPFC_PSTH_and_zscore_DT_vs_NE.m'; 'plot_fig4A_SEP_H_vs_M.m'; 'plot_fig4C_mPFC_PSTH_Hit_vs_Miss.m'; 'plot_figS3B_Stim_vs_Catch_for_significantly_inc_dec_units.m'; 'plot_figS4A_H_vs_M_for_inc_dec_units_and_zscored_PSTH.m':<br> https://ch.mathworks.com/matlabcentral/fileexchange/27485-boundedline-m<br> 43. 'inpaint_nans.m' - this is a Matlab code, which is called in the Matlab code 'boundedline.m'.<br> 44. 'PSTH_Simple.m' - this is a Matlab code developed by V. Esmaeili, which is called in the Matlab codes 'plot_fig1C_Silicon_Probe_Hit_trials.m'; 'plot_fig3D_mPFC_PSTH_and_zscore_DT_vs_NE.m'; 'plot_fig4C_mPFC_PSTH_Hit_vs_Miss.m'; 'plot_figS3B_Stim_vs_Catch_for_significantly_inc_dec_units.m'; 'plot_figS4A_H_vs_M_for_inc_dec_units_and_zscored_PSTH.m’.</p>
Transferring energy signatures across space and time to assess their viability for rapid urban energy demand estimation
<p>This data archive provides simulated hourly heating and cooling building energy demand for current and future RCP85 climate for 8 representative cities for a single-family and small office building archetype.</p> <p>The data forms part of the following publication:</p> <p><em>Eggimann S.; Fiorentini M. (2024): Transferring energy signatures across space and time to assess their viability for rapid urban energy demand estimation. Energy and Buildings. https://doi.org/10.1016/j.enbuild.2024.114348</em></p> <p><strong>Attributes</strong></p> <ul> <li>ID_origin: City ID of source city</li> <li>ID_destination: City ID of target city</li> <li>Signature_Cooling: Cooling demand determined by the signature approach</li> <li>Model_Cooling: Cooling demand determined by EnergyPlus</li> <li>Absolute_Diff: Absolute difference</li> <li>Percentage_Diff: Relative difference</li> <li>Daily_Tout: Average daily dry-bulb ambient temperature</li> </ul> <p><strong>Instruction</strong></p> <p>To obtain the simulation and energy signature-based results, it is required to filter the dataset and set the source ID to the destination ID. The city IDs are provided in the file city_table_ID.</p> <p><strong>Source</strong></p> <p>The archetypes are provided by the Office of Energy Efficiency & Renewable Energy: https://www.energycodes.gov/prototype-building-models</p>
Datasets for "Advancing Drug-Target Interactions Prediction: Leveraging a Large-Scale Dataset with a Rapid and Robust Chemogenomic Algorithm"
<p>All datasets required to reproduce the results of publication "Drug-Target Interactions Prediction at Scale: the Komet Algorithm with the LCIdb Dataset"</p>
Supplementary data to accompany "phyloFlash: A pipeline for rapid SSU rRNA-targeted profiling of metagenomes"
<p>Usage examples of the phyloFlash pipeline applied to shotgun metagenomic data sets.</p> <p>The phyloFlash software is available from https://github.com/HRGV/phyloFlash. Examples were generated with phyloFlash v3.3b.</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.