cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7701638
title: Empirical Dynamic Quantiles for Visualization of High-Dimensional Time Series

description: <b>The empirical quantiles of independent data provide a good summary of the underlying distribution of the observations. For high-dimensional time series defined in two dimensions, such as in space and time, one can define empirical quantiles of all observations at a given time point, but such time-wise quantiles can only reflect properties of the data at that time point. They often fail to capture the dynamic dependence of the data. In this article, we propose a new definition of empirical dynamic quantiles (EDQ) for high-dimensional time series that mitigates this limitation by imposing that the quantile must be one of the observed time series. The word <i>dynamic</i> emphasizes the fact that these newly defined quantiles capture the time evolution of the data. We prove that the EDQ converge to the time-wise quantiles under some weak conditions as the dimension increases. A fast algorithm to compute the dynamic quantiles is presented and the resulting quantiles are used to produce summary plots for a collection of many time series. We illustrate with two real datasets that the time-wise and dynamic quantiles convey different and complementary information. We also briefly compare the visualization provided by EDQ with that obtained by functional depth. The R code and a vignette for computing and plotting EDQ are available at</b>https://github.com/dpena157/HDts/.
DOI: 10.7284/115086
title: Water Temperature data collected during research cruise AT26-24 using a Sea-Bird SBE-48 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701638.v1
title: Empirical Dynamic Quantiles for Visualization of High-Dimensional Time Series

description: <b>The empirical quantiles of independent data provide a good summary of the underlying distribution of the observations. For high-dimensional time series defined in two dimensions, such as in space and time, one can define empirical quantiles of all observations at a given time point, but such time-wise quantiles can only reflect properties of the data at that time point. They often fail to capture the dynamic dependence of the data. In this article, we propose a new definition of empirical dynamic quantiles (EDQ) for high-dimensional time series that mitigates this limitation by imposing that the quantile must be one of the observed time series. The word <i>dynamic</i> emphasizes the fact that these newly defined quantiles capture the time evolution of the data. We prove that the EDQ converge to the time-wise quantiles under some weak conditions as the dimension increases. A fast algorithm to compute the dynamic quantiles is presented and the resulting quantiles are used to produce summary plots for a collection of many time series. We illustrate with two real datasets that the time-wise and dynamic quantiles convey different and complementary information. We also briefly compare the visualization provided by EDQ with that obtained by functional depth. The R code and a vignette for computing and plotting EDQ are available at</b>https://github.com/dpena157/HDts/.
DOI: 10.6084/m9.figshare.7701701.v2
title: macaque_behav_syn_stress

description: Script provided for an analysis of the repeatability of GC expression in Barbary macaques, and how GC expression is related to behavioural syndromes.<br>
DOI: 10.6084/m9.figshare.7701629
title: Constructing D-Efficient Mixed-Level Foldover Designs Using Hadamard Matrices

description: This paper introduces a new class of Hadamard matrix-based mixed-level foldover designs (MLFODs) and an algorithm which facilitates the construction of MLFODs. Our new MLFODs were constructed by converting some 2-level columns of a Hadamard matrix to 3-level ones. Like the 2-level foldover designs (FODs), each new MLFOD was constructed by a half fraction and its foldover. Our Hadamard-matrix based MLFODs are compared with the conference matrix-based FODs of Jones & Nachtsheim (2013) in terms of the D-efficiencies and the maximum of the absolute values of the correlation coefficients among the columns of the model matrix. Like the latter, our designs are also <i>definitive</i> in the sense that the estimates of all main effects are unbiased with respect to any active second order effects. In addition, they require fewer runs and can be used to study the presence of the second-order effects more efficiently. Examples illustrating the use of our new MLFODs are given.
DOI: 10.7284/115083
title: TSG (Thermosalinograph) data collected during research cruise AT26-24 using a Sea-Bird SBE-45 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701629.v1
title: Constructing D-Efficient Mixed-Level Foldover Designs Using Hadamard Matrices

description: This paper introduces a new class of Hadamard matrix-based mixed-level foldover designs (MLFODs) and an algorithm which facilitates the construction of MLFODs. Our new MLFODs were constructed by converting some 2-level columns of a Hadamard matrix to 3-level ones. Like the 2-level foldover designs (FODs), each new MLFOD was constructed by a half fraction and its foldover. Our Hadamard-matrix based MLFODs are compared with the conference matrix-based FODs of Jones & Nachtsheim (2013) in terms of the D-efficiencies and the maximum of the absolute values of the correlation coefficients among the columns of the model matrix. Like the latter, our designs are also <i>definitive</i> in the sense that the estimates of all main effects are unbiased with respect to any active second order effects. In addition, they require fewer runs and can be used to study the presence of the second-order effects more efficiently. Examples illustrating the use of our new MLFODs are given.
DOI: 10.7284/117191
title: Multiplexed data collected during research cruise AT26-25 using a WHOI Calliope instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/117190
title: Fluorometer data collected during research cruise AT26-25 using a WET Labs WETStar instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/117189
title: GNSS (Global Navigation Satellite System) data collected during research cruise AT26-25 using a C&C C-Nav 2050G instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17028/rd.lboro.7701461
title: Viscous dissipation single particles

description: Data sets extracted from COMSOL and from numerical implementations of the Epstein-Carhart/Allegra-Hawley model for Rayleigh scattering in a thermo-viscous medium. Vorticity and viscous power dissipation. <br>As plotted in Figures in Scientific Reports (2019): Forrester, Huang, Pinfield "Modelling viscous boundary layer dissipation effects in liquid surrounding individual solid nano- and micro-particles in an ultrasonic field"
DOI: 10.17028/rd.lboro.7701461.v1
title: Viscous dissipation single particles

description: Data sets extracted from COMSOL and from numerical implementations of the Epstein-Carhart/Allegra-Hawley model for Rayleigh scattering in a thermo-viscous medium. Vorticity and viscous power dissipation. <br>As plotted in Figures in Scientific Reports (2019): Forrester, Huang, Pinfield "Modelling viscous boundary layer dissipation effects in liquid surrounding individual solid nano- and micro-particles in an ultrasonic field"
DOI: 10.6084/m9.figshare.7701458
title: Routine surveillance for the identification of drug resistant Tuberculosis in Tanzania: A cross Sectional study of stakeholder’s perceptions

description: Background: Routine surveillance is required to monitor the performance of tuberculosis diagnostic programme and is essential for the rapid detection of drug resistance. The main objective of this study was to explore the effectiveness and stakeholder perception of the current routine surveillance system for previously treated tuberculosis cases in Tanzania with a view to identify interventions to improve and accelerate positive patient outcomes.<b></b> Methods:<b> </b>A study using quantitative and qualitative methods of data collection including in-depth interviews and focus group discussions with health care service providers was conducted in four regions. Quantitative data were extracted from the routine databases to assess performance. Results: Quantitative findings from 2011 to 2013 showed 2,750 specimens from previously treated TB cases were received at the reference laboratory. The number increased year on year, but even in the most recent year was only 61% of that expected. The median and interquartile range of turnaround time in days from specimen reception to results reported for smear microscopy, culture and drug susceptibility testing were 1(1, 1), 61(43, 71) and 129(72, 170) respectively. Contaminated specimens were reported in 3.6% of cases. The qualitative analysis showed the system of sending specimens using postal services was seen to be efficient by participants. However, there were many challenges and significant delays in specimens reaching the reference laboratory associated with lack of funds to transfer specimens, weak form completion, inadequate training and poor supervision. These all adversely affected the implementation of the routine surveillance system. Conclusions: Many issues limit the effectiveness of the routine surveillance system in Tanzania. Priority areas for strengthening are; specimen transportation, supervision and availability of commodities. A pilot study of a revised routine surveillance system that takes into account the observations from this study alongside improved access to drug susceptibility testing using Xpert MTB/RIF should be considered
DOI: 10.7284/117192
title: Meteorological Station data collected during research cruise AT26-25 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701434
title: Thursday Talks

description: Talks from Thursday of the Dutch Multi-messenger in the 2030s Workshop (February 2019)
DOI: 10.6084/m9.figshare.7701440
title: Friday Talks

description: Talks from Friday of the Dutch Multi-messenger in the 2030s Workshop (February 2019)
DOI: 10.6084/m9.figshare.7701458.v1
title: Routine surveillance for the identification of drug resistant Tuberculosis in Tanzania: A cross Sectional study of stakeholder’s perceptions

description: Background: Routine surveillance is required to monitor the performance of tuberculosis diagnostic programme and is essential for the rapid detection of drug resistance. The main objective of this study was to explore the effectiveness and stakeholder perception of the current routine surveillance system for previously treated tuberculosis cases in Tanzania with a view to identify interventions to improve and accelerate positive patient outcomes.<b></b> Methods:<b> </b>A study using quantitative and qualitative methods of data collection including in-depth interviews and focus group discussions with health care service providers was conducted in four regions. Quantitative data were extracted from the routine databases to assess performance. Results: Quantitative findings from 2011 to 2013 showed 2,750 specimens from previously treated TB cases were received at the reference laboratory. The number increased year on year, but even in the most recent year was only 61% of that expected. The median and interquartile range of turnaround time in days from specimen reception to results reported for smear microscopy, culture and drug susceptibility testing were 1(1, 1), 61(43, 71) and 129(72, 170) respectively. Contaminated specimens were reported in 3.6% of cases. The qualitative analysis showed the system of sending specimens using postal services was seen to be efficient by participants. However, there were many challenges and significant delays in specimens reaching the reference laboratory associated with lack of funds to transfer specimens, weak form completion, inadequate training and poor supervision. These all adversely affected the implementation of the routine surveillance system. Conclusions: Many issues limit the effectiveness of the routine surveillance system in Tanzania. Priority areas for strengthening are; specimen transportation, supervision and availability of commodities. A pilot study of a revised routine surveillance system that takes into account the observations from this study alongside improved access to drug susceptibility testing using Xpert MTB/RIF should be considered
DOI: 10.7284/117193
title: Meteorological Station data collected during research cruise AT26-25 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701275
title: total_data_2012-2014_continuum.csv

description: Sex allocation data of Mercurialis annua experimental populatons grown in 1:1 sex ratio in 2012 and 2014
DOI: 10.6084/m9.figshare.7701434.v2
title: Thursday Talks

description: Talks from Thursday of the Dutch Multi-messenger in the 2030s Workshop (February 2019)
DOI: 10.6084/m9.figshare.7701440.v1
title: Friday Talks

description: Talks from Friday of the Dutch Multi-messenger in the 2030s Workshop (February 2019)
DOI: 10.6084/m9.figshare.7701434.v1
title: Thursday Talks

description: Talks from Thursday of the Dutch Multi-messenger in the 2030s Workshop (February 2019)
DOI: 10.6084/m9.figshare.7701440.v3
title: Friday Talks

description: Talks from Friday of the Dutch Multi-messenger in the 2030s Workshop (February 2019)
DOI: 10.6084/m9.figshare.7701440.v2
title: Friday Talks

description: Talks from Friday of the Dutch Multi-messenger in the 2030s Workshop (February 2019)
DOI: 10.7284/117195
title: Radiometer data collected during research cruise AT26-25 using a Eppley PIR instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/117196
title: Radiometer data collected during research cruise AT26-25 using a Eppley PSP instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.5281/zenodo.4004800
title: Data for research on nurse rostering in Denmark

description: A report describing data for nurse rostering in Denmark, along with 12 instances.
description: This version includes the original data (Formulation_WeightedSum.zip) along with the data needed to formulate the problem using targets and acceptance thresholds (Reformulation_TargetsAcceptanceThresholds.zip).
DOI: 10.7284/117197
title: Water Temperature data collected during research cruise AT26-25 using a Sea-Bird SBE-48 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.5281/zenodo.2815116
title: Data for research on nurse rostering in Denmark

description: A report describing data for nurse rostering in Denmark, along with 12 instances.
description: This version includes the original data (Formulation_WeightedSum.zip) along with the data needed to formulate the problem using targets and acceptance thresholds (Reformulation_TargetsAcceptanceThresholds.zip).
DOI: 10.6084/m9.figshare.7701086
title: Raw Data from Honeybees show a context-dependent rightward bias

description: Summary of raw data from the experiments.
DOI: 10.7284/117194
title: TSG (Thermosalinograph) data collected during research cruise AT26-25 using a Sea-Bird SBE-45 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701086.v1
title: Raw Data from Honeybees show a context-dependent rightward bias

description: Summary of raw data from the experiments.
DOI: 10.6084/m9.figshare.7701071
title: Macsy_finder_DNA_repair.zip from A matter of background: DNA repair pathways as a possible cause for the sparse distribution of CRISPR–Cas systems in bacteria

description: File with models and HMM profiles for detection of DSB-RS
DOI: 10.7284/117200
title: Multiplexed data collected during research cruise AT26-26 using a WHOI Calliope instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701065
title: World's Fastest Brain-Computer Interface: Combining EEG2Code with Deep Learning

description: <b>1. General description</b>Data was recorded using BCI2000 with g.USBamp (g.tec, Austria) EEG amplifier. 32 electrodes were used. Sampling rate was set to 600 Hz and data was bandpass filtered by the amplifier between 0.1 Hz and 60 Hz using a Chebyshev filter of order 8 and notch-filtered at 50 Hz. Data was stored as MATLAB mat-File.<br><br><b>2. Experimental description</b>The experiment was split in a training phase and a testing phase. During both, the participant had to focus a target which was modulated with fully random stimulation patterns, which were presented with 60 bits per second.For training, the participant had to perform 96 runs for, each with 4 s of stimulation, which means a total of 96*4*60=23040 bits were presented. For testing, the participant also had to perform 96 runs, but with 5 s of stimulation, which results in 96*5*60 = 28800 Bits.<b><br></b><b><br></b><b>3. Variable description</b>The file <b>VP1.mat</b> contains the following variables:- train_data_xcontains the raw EEG data of the training runs split by runs. The matrix has the following dimension: #runs X #channels X #samples- train_data_ycontains the stimulation pattern for each train run, upsampled to be synchronized with the EEG data. The matrix has the following dimension: #runs X #samples- test_data_xcontains the raw EEG data of the test runs split by runs. The matrix has the following dimension: #runs X #channels X #samples- test_data_ycontains the stimulation pattern for each test run, upsampled to be synchronized with the EEG data. The matrix has the following dimension: #runs X #samples<br>The file <b>VP1.hdf5 </b>is the Keras CNN model which was trained during the online experiment.<br>The file <b>EEG2Code.py</b> is a python script which takes the MAT-file as input and outputs the pattern prediction accuracy for each of the test run. It must be noted that the script searches for a Keras model with the file name as the MAT-file (but with hdf5 file extension). If the model exists, it will be loaded, otherwise a new model will be trained.
DOI: 10.6084/m9.figshare.7701071.v1
title: Macsy_finder_DNA_repair.zip from A matter of background: DNA repair pathways as a possible cause for the sparse distribution of CRISPR–Cas systems in bacteria

description: File with models and HMM profiles for detection of DSB-RS
DOI: 10.7284/117201
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AT26-26 using a Hawaii UHDAS instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701068
title: Supplementary Table 1 from A matter of background: DNA repair pathways as a possible cause for the sparse distribution of CRISPR–Cas systems in bacteria

description: Supplementary Table 1
DOI: 10.7284/117202
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AT26-26 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701029
title: Supplementary Table 2 to accompany Microbial Genomics manuscript 10.1099/mgen.0.000251

description: Supplementary Table 2 to accompany Microbial Genomics manuscript 10.1099/mgen.0.000251
DOI: 10.7284/117199
title: Fluorometer data collected during research cruise AT26-26 using a WET Labs WETStar instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7701029.v2
title: Supplementary Table 2 to accompany Microbial Genomics manuscript 10.1099/mgen.0.000251

description: Supplementary Table 2 to accompany Microbial Genomics manuscript 10.1099/mgen.0.000251
DOI: 10.6084/m9.figshare.7701014
title: RAW Data Systematic Review.xlsx

description: The search of databases resulted in 7314 citations<br>
DOI: 10.6084/m9.figshare.7701029.v1
title: Supplementary Table 2.xlsx

description: Supplementary Table 2 to accompany Microbial Genomics manuscript 10.1099/mgen.0.000251
DOI: 10.6084/m9.figshare.7701014.v1
title: RAW Data Systematic Review.xlsx

description: The search of databases resulted in 7314 citations<br>
DOI: 10.7284/117198
title: GNSS (Global Navigation Satellite System) data collected during research cruise AT26-26 using a C&C C-Nav 2050G instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/117203
title: Meteorological Station data collected during research cruise AT26-26 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7700954
title: motorcyc_crash_severity.arff

description: motorcycle crash severity data<br>
DOI: 10.6084/m9.figshare.7700918
title: motorcyc_crash_severity.arff

description: motorcycle crash severity<br>
DOI: 10.7284/117204
title: Meteorological Station data collected during research cruise AT26-26 using a Vaisala WXT520 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7700885
title: Datureae_location_points_full_3cols_Dfer.RData

description: Database with location points for 18 Datureae species.
DOI: 10.7284/117206
title: Radiometer data collected during research cruise AT26-26 using a Eppley PIR instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7700879
title: Datureae_BEAST_SolanoideaeCrown_MCCTree_Nicandra.tre

description: Phylogeny of Datureae with Nicandra as outgroup; pruned MCC tree from Dupin & Smith 2018
DOI: 10.6084/m9.figshare.7700882
title: Datureae_pruned.random.trees.100.tre

description: Sample of 100 trees randomly drawn from the posterior distribution of time-calibrated trees estimated by Dupin & Smith 2018.
DOI: 10.6084/m9.figshare.7700882.v1
title: Datureae_pruned.random.trees.100.tre

description: Sample of 100 trees randomly drawn from the posterior distribution of time-calibrated trees estimated by Dupin & Smith 2018.
DOI: 10.7284/117207
title: Radiometer data collected during research cruise AT26-26 using a Eppley PSP instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7700879.v1
title: Datureae_BEAST_SolanoideaeCrown_MCCTree_Nicandra.tre

description: Phylogeny of Datureae with Nicandra as outgroup; pruned MCC tree from Dupin & Smith 2018
DOI: 10.7284/117208
title: Water Temperature data collected during research cruise AT26-26 using a Sea-Bird SBE-48 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/117205
title: TSG (Thermosalinograph) data collected during research cruise AT26-26 using a Sea-Bird SBE-45 instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/117211
title: Multiplexed data collected during research cruise AT26-27 using a WHOI Calliope instrument system onboard the platform RV Atlantis

description: Original (unprocessed) data collected during a Field_expedition