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8 results for “Perturbative approach”
Data for paper "Stratocumulus adjustments to aerosol perturbations disentangled with a causal approach"
<p>Timeseries data used for the causal effect estimation of the paper "Stratocumulus adjustments to aerosol perturbations disentangled with a causal approach".</p> <p>This dataset contains several cloud parameters and meteorological co-variates corresponding to the evolution of the South-East Atlantic stratocumulus deck for the time period January 2016 to December 2017 and the spatial domain [lon1,lon2,lat1,lat2]=[0, 10, -20, -10]. </p> <p>The processing code used to generate the timeseries data, as well as the analysis code are uploaded separately on Zenodo. The input raw satellite and reanalysis data for the processing code are from EUMETSAT (Copyright (c) (2020) EUMETSAT), NASA and COPERNICUS data (generated using Copernicus Climate Change Service information [2022]). </p> <p> </p> <p>Citations for the raw data sources: </p> <p>Finkensieper, S., Meirink, J.-F., van Zadelhoff, G.-J., Hanschmann, T., Benas, N., Stengel, M., Fuchs, P., Hollmann, R., Kaiser, J., Werscheck, M.: CLAAS-2.1: CM SAF CLoud property dAtAset using SEVIRI - Edition 2.1. Satellite Application Facility on Climate Monitoring (2020). <a href="https://doi.org/10.5676/EUM_SAF_CM/CLAAS/V002_01">https://doi.org/10.5676/EUM_SAF_CM/CLAAS/V002_01</a></p> <p>Huffman, G.J., Stocker, E.F., Bolvin, D.T., Nelkin, E.J., Tan, J.: GPMIMERG Final Precipitation L3 Half Hourly 0.1 degree x 0.1 degree V06. MD, Goddard Earth Sciences Data and Information Services Center (GES DISC) (2019). <a href="https://doi.org/10.5067/GPM/IMERG/3B-HH/06">https://doi.org/10.5067/GPM/IMERG/3B-HH/06</a>.</p> <p>Hersbach, H., Bell, B., Berrisford, P., Biavati, G., Horanyi, A., Munoz Sabater, J., Nicolas, J., Peubey, C., Radu, R., Rozum, I., Schepers, D., Simmons, A., Soci, C., Dee, D., Th ́ebaut, J.-N.: ERA5 hourly data on single levels from 1959 to present. Copernicus Climate Change Service (C3S) Climate Data Store (CDS) (2018). <a href="https://doi.org/10.24381/cds.adbb2d47">https://doi.org/10.24381/cds.adbb2d47</a></p> <p>Hersbach, H., Bell, B., Berrisford, P., Biavati, G., Horanyi, A., Munoz Sabater, J., Nicolas, J., Peubey, C., Radu, R., Rozum, I., Schepers, D., Simmons, A., Soci, C., Dee, D., Th ́ebaut, J.-N.: ERA5 hourly data on pressure levels from 1959 to present. Copernicus Climate Change Service (C3S) Climate Data Store (CDS) (2018). <a href="https://doi.org/10.24381/cds.bd0915c6">https://doi.org/10.24381/cds.bd0915c6</a></p>
Perturbed Synthetic SWOT Datasets for Testing and Development of a Kalman Filter Approach to Estimate Daily Discharge
<p><strong>1. Introduction</strong></p> <p>Datasets are used to evaluate the performance of a Kalman filter approach to estimate daily discharge. This is a perturbed version of synthetic SWOT datasets consisting of 15 river sections, which are commonly agreed datasets for evaluating the performance of SWOT discharge algorithms (Frasson et al., 2020, 2021). The benchmarking manuscript entitled “A Kalman Filter Approach for Estimating Daily Discharge Using Space-based Discharge Estimates” is currently under review at Water Resources Research. Once the manuscript is accepted, its DOI will be included here.</p> <p> </p> <p><strong>2. </strong><strong>File description</strong></p> <p>The datasets are generally divided into two categories: river information (River_Info) and time series data (Timeseries_Data). River information provides fundamental and general river characteristics, whereas time series data offers daily reach-averaged data for each reach. In time series data, the data mainly contains three components: true data, perturbed measurements, and true and perturbed flow law parameters (A0, an, and b). For each reach, there are 10000 realizations of perturbed measurements per time step and there are 100 realizations of time-invariant perturbed flow law parameters through a Monte Carlo simulation (Frasson et al., 2023). Moreover, to support our proposed Kalman filter approach to estimate daily discharge, the datasets provide the median of the perturbed discharge, river width, water surface slope, and change in the cross-sectional area, as well as the uncertainty of the perturbed discharge and change in the cross-sectional area based on the interquartile range (Fox, 2015).</p> <p>To support reproducibility and facilitate example usage, we now include a MATLAB code package (<code>KalmanFilter_Code.zip</code>) that demonstrates how to run the Kalman filter approach using the Missouri Downstream case as an example. </p> <p>Datasets are contained in a .mat file per river. The detailed groups and variables are in the following:</p> <p><strong>River_Info</strong></p> <p>Name: River name, data type: char</p> <p>QWBM: Mean annual discharge from the water balance model WBMsed (Cohen et al., 2014)</p> <p>rch_bnd: Reach boundaries measured in meters from the upstream end of the model</p> <p>gdrch: Good reaches in the study. They were used to exclude small reaches defined around low-head dams and other obstacles where Manning’s equation should not be applied.</p> <p><strong>Timeseries_Data</strong></p> <p>t: Time measured in days since the first day or “0-January-0000” for cases when specific dates were available. Dimension: 1, time step.</p> <p>A: Reach-averaged cross-sectional area of flow in m<sup>2</sup>. Dimension: Reach, time step.</p> <p>Q_true: True reach-averaged discharge (m<sup>3</sup>/s). Dimension: Reach, time step.</p> <p>Q_ptb: Perturbed discharge (m<sup>3</sup>/s), including 10000 realizations for each measurement. Dimension: Good reach, time step, 10000.</p> <p>med_Q_ptb: Median perturbed discharge (m<sup>3</sup>/s) across the 10000 realizations. Dimension: Good reach, time step.</p> <p>sigma_Q_ptb: Uncertainty of the perturbed discharge (m<sup>3</sup>/s), calculated based on the interquartile range. Dimension: Good reach, time step.</p> <p>W_true: True reach-averaged river width (m). Dimension: Reach, time step.</p> <p>W_ptb: Perturbed river width (m), including 10000 realizations for each measurement. Dimension: Good reach, time step, 10000.</p> <p>med_W_ptb: Median perturbed river width (m) across the 10000 realizations. Dimension: Good reach, time step.</p> <p>H_true: True reach-averaged water surface elevation (m). Dimension: Reach, time step.</p> <p>H_ptb: Perturbed water surface elevation (m), including 10000 realizations for each measurement. Dimension: Good reach, time step, 10000.</p> <p>S_true: True reach-averaged water surface slope (m/m). Dimension: Reach, time step.</p> <p>S_ptb: Perturbed water surface slope (m/m), including 10000 realizations for each measurement. Dimension: Good reach, time step, 10000.</p> <p>med_S_ptb: Median perturbed water surface slope (m/m) across the 10000 realizations. Dimension: Good reach, time step.</p> <p>dA_true: True reach-averaged change in the cross-sectional area (m<sup>2</sup>). Dimension: Good reach, time step.</p> <p>dA_ptb: Perturbed change in the cross-sectional area (m<sup>2</sup>), including 10000 realizations for each measurement. Dimension: Good reach, time step, 10000.</p> <p>med_dA_ptb: Median perturbed change in the cross-sectional area (m<sup>2</sup>) across the 10000 realizations. Dimension: Good reach, time step.</p> <p>sigma_dA_ptb: Uncertainty of the perturbed change in the cross-sectional area (m<sup>2</sup>), calculated based on the interquartile range. Dimension: Good reach, time step.</p> <p>A0_true: True baseline cross-sectional area (m<sup>2</sup>). Dimension: Good reach, 1.</p> <p>A0: Perturbed baseline cross-sectional area (m<sup>2</sup>), including 100 realizations for each parameter. Dimension: Good reach, 100.</p> <p>na_true: True friction coefficient. Dimension: Good reach, 1.</p> <p>na: Perturbed friction coefficient, including 100 realizations for each parameter. Dimension: Good reach, 100.</p> <p>b_true: True exponent coefficient. Dimension: Good reach, 1.</p> <p>b: Perturbed exponent coefficient, including 100 realizations for each parameter. Dimension: Good reach, 100.</p>
Understanding muscle function during perturbed in vivo locomotion using a muscle avatar approach
<p>To investigate in vivo mechanics of the guinea fowl lateral gastrocnemius (LG) muscle during obstacle negotiation while running on a treadmill, we used mouse extensor digitorum longus (EDL) muscles in ex vivo experiments with in vivo strain inputs from perturbed and steady strides obtained in a previous study. In vivo strain trajectories from a stride down from obstacle to treadmill, two strides up from treadmill to obstacle, and a level stride with no obstacle, as well as a sinusoidal strain trajectory at the same amplitude and frequency, were used as inputs in work loop experiments. With five strain trajectories and three activation patterns, each muscle was used in a total of 15 work loop experiments. EDL forces produced using in vivo strain trajectories were more similar to in vivo LG forces (<em>R<sup>2</sup></em> = 0.58 – 0.94) than to forces produced using the sinusoidal trajectory (average <em>R<sup>2</sup></em> = 0.045). Given the same activation, in vivo strain trajectories produced consistent work loops that showed a shift in muscle function from more positive work during strides up from treadmill to obstacle to less positive work in strides down from obstacle to treadmill. Activation, strain trajectory, and activation*strain trajectory interaction had significant effects on all work loop variables, with the interaction having the largest effect on peak force and work per cycle. These results support the hypothesis that muscle is an active material whose viscoelastic properties are tuned by activation, and which produces forces in response to deformations of length associated with time-varying loads.</p>
Understanding muscle function during perturbed in vivo locomotion using a muscle avatar approach
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Method of moments approach for generalized differential gene expression analysis (Perturb-seq)
GEO Series GSE274751. Homo sapiens. 24 samples. Type: Expression profiling by high throughput sequencing.
MethNet: a robust approach to identify regulatory hubs and their distal targets in cancer [Perturb-seq]
GEO Series GSE236304. Homo sapiens. 3 samples. Type: Other.
Small Perturbation Approach Reveals Transcriptomic Steady State
GEO Series GSE7060. Homo sapiens. 16 samples. Type: Expression profiling by array.
Approaches for machine learning intermolecular interaction energies and application to energy components from symmetry adapted perturbation theory
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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.