cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10624402
title: Wrapper Impact Workloads and BSC Slurm Simulator Output of Static Traces based on Data from LUMI Supercomputer

description: This dataset contains the workloads, with the workflow added to them, and the results of the simulations of the static trace utilizing LUMI fitted data carried out using BSC's SLURM Simulator.

It is organized in two folders: workloads and results. In the first, we find a folder per experiment, which is a different randomly generated workload file. Within each experiment we find a folder per fair share inidicating the target platform, the workflow it was based on, and the characteristics of the tracked job: number of cores and runtime. The results folder follows the same scheme but with a file extension of ".trace".
DOI: 10.5281/zenodo.10624403
title: Wrapper Impact Workloads and BSC Slurm Simulator Output of Static Traces based on Data from LUMI Supercomputer

description: This dataset contains the workloads, with the workflow added to them, and the results of the simulations of the static trace utilizing LUMI fitted data carried out using BSC's SLURM Simulator.

It is organized in two folders: workloads and results. In the first, we find a folder per experiment, which is a different randomly generated workload file. Within each experiment we find a folder per fair share inidicating the target platform, the workflow it was based on, and the characteristics of the tracked job: number of cores and runtime. The results folder follows the same scheme but with a file extension of ".trace".
DOI: 10.5281/zenodo.10820723
title: LRD Photometry and Physical Parameters in Blank JWST Fields (Kokorev+24)

description: Photometry and physical parameters of little red dots in an array of blank extragalactic fields as presented in Kokorev+24.
DOI: 10.5281/zenodo.10820724
title: LRD Photometry and Physical Parameters in Blank JWST Fields (Kokorev+24)

description: Photometry and physical parameters of little red dots in an array of blank extragalactic fields as presented in Kokorev+24.
DOI: 10.5281/zenodo.10809377
title: Supplementary supply chain (input) data

description: This document provides supplementary information on the Conference Paper entitled 'Ensuring supply for emergency services –modeling supply chains with incomplete sets of data'' submitted by Kippenberger et al. for the Simulation Notes Europe (SNE)
DOI: 10.5281/zenodo.10809378
title: Supplementary supply chain (input) data

description: This document provides supplementary information on the Conference Paper entitled 'Ensuring supply for emergency services –modeling supply chains with incomplete sets of data'' submitted by Kippenberger et al. for the Simulation Notes Europe (SNE)
DOI: 10.5281/zenodo.10731821
title: Bottom up Isoprene emissions (assimilated data)

description: BVOC gas emissions from vegetation represent a hugely important contributor to the total emission of volatile organic compounds at the global scale. BVOCs in turn play a key role in tropospheric chemistry and impact both the formation of ozone photochemical smog and secondary organic aerosols, which both impact air quality. MEGAN is an open-sourced software package that has been adapted by researchers at NILU to operate with SURFEX model outputs and meteorological data from ECMWF. The MEGAN software calculates emissions of a wide range of BVOCs emitted by plants and aggregates these chemical components into representative chemical species defined in an external chemical mechanism. In our case, this done specifically is for the BVOCs defined (see Table 2 for full list) in the Regional Atmospheric Chemistry Mechanism (Stockwell et al., 1997) that is used in the MOCAGE (Guth et al., 2016) chemical transport model. MOCAGE is being used as the test model the SEEDS project since it is one of the CAMS regional atmospheric chemistry models.

https://www.seedsproject.eu/data/isop-assim
DOI: 10.5281/zenodo.10731820
title: Bottom up Isoprene emissions (assimilated data)

description: BVOC gas emissions from vegetation represent a hugely important contributor to the total emission of volatile organic compounds at the global scale. BVOCs in turn play a key role in tropospheric chemistry and impact both the formation of ozone photochemical smog and secondary organic aerosols, which both impact air quality. MEGAN is an open-sourced software package that has been adapted by researchers at NILU to operate with SURFEX model outputs and meteorological data from ECMWF. The MEGAN software calculates emissions of a wide range of BVOCs emitted by plants and aggregates these chemical components into representative chemical species defined in an external chemical mechanism. In our case, this done specifically is for the BVOCs defined (see Table 2 for full list) in the Regional Atmospheric Chemistry Mechanism (Stockwell et al., 1997) that is used in the MOCAGE (Guth et al., 2016) chemical transport model. MOCAGE is being used as the test model the SEEDS project since it is one of the CAMS regional atmospheric chemistry models.

https://www.seedsproject.eu/data/isop-assim
DOI: 10.5281/zenodo.8340251
title: Data associated with global-bird-detection-paper

description: Data for repository located at https://github.com/sarabsethi/global-bird-detection-paper

Unzip the file to the directory and follow the instructions in the repository to run the code.

(March 2024 update reflects modifications made for manuscript revision)
DOI: 10.5281/zenodo.10820674
title: Example environment and files for the ATS evaluation

description: Example of an working environment for ATS. Included are the workflows and manual evaluation scripts, the target lists  for LC-ESIpos and GC-EI, the minified raw data in .mzML as well as the results after ATS evaluation.
DOI: 10.5281/zenodo.10047377
title: Example environment and files for the ATS evaluation

description: Example of an working environment for ATS. Included are the workflows and manual evaluation scripts, the target lists  for LC-ESIpos and GC-EI, the minified raw data in .mzML as well as the results after ATS evaluation.
DOI: 10.5281/zenodo.10820898
title: Symbiodiniaceae diversity varies by host and environment across thermally distinct reefs

description: Analysis for Coral population ecology predicts Symbiodiniaceae diversity across thermally distinct reefsAuthors: Magena R. Marzonie, Matthew R. Nitschke, Line K. Bay, David G. Bourne, Hugo B. Harrison

1_Analysis.Rmd contains all scripts required to run analyses within the manuscript. Analysis are structured as follows within the Rmd: (use Outline tab in Rmd for easy navigating)



Library statistics for ITS2 type profiles/DIVs <br

UPGMA trees for ITS2 type profiles/DIVs

Marker alignment tanglegram psba-ITS2

PCoAs with UniFrac distance

distance-based RDAs

Procrustes rotation analysis

distance-based RDA subset models with host genetic data


 

2_R2Analyses.Rmd



Scripts to run host NJ (neighbour-joining trees)

Run final distance based RDA models (host and environmental conditional models)


Other files needed to run scripts>

O_SymPortal folder contains post-med sequence analysis of symbiont DIVs and Type Profiles which are required to run 1_Analysis

Metadata.csv contains environmental and host species data associated with each sample. Note that 'Vial' refers to each coral individual sample collected

Metadata_mtorf.csv contains environmental and host species data associated with each sample, with updated mtORF alignment. Both metadata files are required for 1_Analysis. Note that 'Vial' refers to each coral individual sample collected

psba txt files are required to run the marker alignment

PverDart_CSS/ PmeaDart_CSS/ AcroDart_AlCluster_CSS contains the scripts required to run host filtering These files are not needed to directly run 1_Analysis.Rmd scripts, but show the pre-filtering steps prior to importing host genetic data.
DOI: 10.5281/zenodo.10820899
title: Symbiodiniaceae diversity varies by host and environment across thermally distinct reefs

description: Analysis for Coral population ecology predicts Symbiodiniaceae diversity across thermally distinct reefsAuthors: Magena R. Marzonie, Matthew R. Nitschke, Line K. Bay, David G. Bourne, Hugo B. Harrison

1_Analysis.Rmd contains all scripts required to run analyses within the manuscript. Analysis are structured as follows within the Rmd: (use Outline tab in Rmd for easy navigating)



Library statistics for ITS2 type profiles/DIVs <br

UPGMA trees for ITS2 type profiles/DIVs

Marker alignment tanglegram psba-ITS2

PCoAs with UniFrac distance

distance-based RDAs

Procrustes rotation analysis

distance-based RDA subset models with host genetic data


 

2_R2Analyses.Rmd



Scripts to run host NJ (neighbour-joining trees)

Run final distance based RDA models (host and environmental conditional models)


Other files needed to run scripts>

O_SymPortal folder contains post-med sequence analysis of symbiont DIVs and Type Profiles which are required to run 1_Analysis

Metadata.csv contains environmental and host species data associated with each sample. Note that 'Vial' refers to each coral individual sample collected

Metadata_mtorf.csv contains environmental and host species data associated with each sample, with updated mtORF alignment. Both metadata files are required for 1_Analysis. Note that 'Vial' refers to each coral individual sample collected

psba txt files are required to run the marker alignment

PverDart_CSS/ PmeaDart_CSS/ AcroDart_AlCluster_CSS contains the scripts required to run host filtering These files are not needed to directly run 1_Analysis.Rmd scripts, but show the pre-filtering steps prior to importing host genetic data.
DOI: 10.5281/zenodo.10813480
title: Spherical harmonic models of the shape of Enceladus [JPL SPC]

description: This archive contains two spherical harmonic models of the shape of Saturn's moon Enceladus, truncated at different maximum spherical harmonic degrees. The highest resolution model has a maximum spherical harmonic degree of 1023, which was generated from an ICQ shape model with Q=1024.

The data used to generate these models are from a JPL stereo photoclinometric shape model based on images obtained by the Cassini mission, as found in the file cas_enceladus_ssd_spc_1024icq_v1.bds on NASA's PDS website. The vertices were first converted from Cartesian to spherical coordinates, from which a regular gridline registered netcdf file was created using the generic-mapping-tools function surface with a tension of 0.6 and with a grid spacing of 0.087890625 degrees. This file was then read into the pyshtools software and expanded into spherical harmonics using the function SHCoeffs.expand(). The spherical harmonic functions were chosen to be "4pi" normalized and to exclude the Condon-Shortley phase factor of (-1)m. The units of the coefficients are meters.

The two files in this archive are



Enceladus_JPL_SPC_shape_1023.bshc.gz

Enceladus_JPL_SPC_shape_719.bshc.gz


The numbers 1023 and 719 in the filename refer to the maximum spherical harmonic degree of file, which corresponds to effective spatial resolutions of ~11.4 and 8 pixels per degree, respectively. The files are stored in the binary "bshc" format as described in the pyshtools documentation and are furthermore compressed using gzip. The lower resolution model was generated by truncating the spherical harmonic coefficients of the highest resolution model.
DOI: 10.5281/zenodo.10813481
title: Spherical harmonic models of the shape of Enceladus [JPL SPC]

description: This archive contains two spherical harmonic models of the shape of Saturn's moon Enceladus, truncated at different maximum spherical harmonic degrees. The highest resolution model has a maximum spherical harmonic degree of 1023, which was generated from an ICQ shape model with Q=1024.

The data used to generate these models are from a JPL stereo photoclinometric shape model based on images obtained by the Cassini mission, as found in the file cas_enceladus_ssd_spc_1024icq_v1.bds on NASA's PDS website. The vertices were first converted from Cartesian to spherical coordinates, from which a regular gridline registered netcdf file was created using the generic-mapping-tools function surface with a tension of 0.6 and with a grid spacing of 0.087890625 degrees. This file was then read into the pyshtools software and expanded into spherical harmonics using the function SHCoeffs.expand(). The spherical harmonic functions were chosen to be "4pi" normalized and to exclude the Condon-Shortley phase factor of (-1)m. The units of the coefficients are meters.

The two files in this archive are



Enceladus_JPL_SPC_shape_1023.bshc.gz

Enceladus_JPL_SPC_shape_719.bshc.gz


The numbers 1023 and 719 in the filename refer to the maximum spherical harmonic degree of file, which corresponds to effective spatial resolutions of ~11.4 and 8 pixels per degree, respectively. The files are stored in the binary "bshc" format as described in the pyshtools documentation and are furthermore compressed using gzip. The lower resolution model was generated by truncating the spherical harmonic coefficients of the highest resolution model.
DOI: 10.5281/zenodo.10623439
title: Wrapper Impact Workloads and BSC Slurm Simulator Output of Dynamic Traces from CEA Curie

description: This dataset contains the workloads, with the workflow added to them, and the results of the simulations of the dynamic trace utilizing Curie's workload carried out using BSC's SLURM Simulator.

It is organized in two folders: workloads and results. In the first, we find a folder per target fair share value that the user that we track its usage. Within, we have a file with the name indicating if the workflow is wrapped or not, the type, vertical or horizontal, and the instant of submission. This file is in SWF format. Under the results folder, we have the same organizaion: each .trace is the raw file produced by the simulator. 

The workload log from the CEA Curie system was graciously provided by Joseph Emeras (Joseph.Emeras@imag.fr).
DOI: 10.5281/zenodo.10623438
title: Wrapper Impact Workloads and BSC Slurm Simulator Output of Dynamic Traces from CEA Curie

description: This dataset contains the workloads, with the workflow added to them, and the results of the simulations of the dynamic trace utilizing Curie's workload carried out using BSC's SLURM Simulator.

It is organized in two folders: workloads and results. In the first, we find a folder per target fair share value that the user that we track its usage. Within, we have a file with the name indicating if the workflow is wrapped or not, the type, vertical or horizontal, and the instant of submission. This file is in SWF format. Under the results folder, we have the same organizaion: each .trace is the raw file produced by the simulator. 

The workload log from the CEA Curie system was graciously provided by Joseph Emeras (Joseph.Emeras@imag.fr).
DOI: 10.5281/zenodo.10820804
title: Wallin et al BINV

description: Data and code for analysis and figures - Wallin et al 2024 "Indications of reproductive disturbance by the invasive round goby on a native salmonid" BINV.
DOI: 10.6084/m9.figshare.24596058
title: Supplemental data

description: The dataset for the article "The current utilization status of wearable devices in clinical research".Analyses were performed by utilizing the JMP Pro 16.10, Microsoft Excel for Mac version 16 (Microsoft).The file extension "jrp" is a file of the statistical analysis software JMP, which contains both the analysis code and the data set.In case JMP is not available, a "csv" file as a data set and JMP script, the analysis code, are prepared in "rtf" format.The "xlsx" file is a Microsoft Excel file that contains the data set and the data plotted or tabulated using Microsoft Excel functions.<b>Supplementary Figure 1. NCT number duplication frequency</b>Includes Excel file used to create the figure (Supplemental Figure 1).・Sfig1_NCT number duplication frequency.xlsx<br><b>Supplementary Figure 2-5　</b><b>Simple and annual time series aggregation</b>Includes Excel file, JMP repo file, csv dataset of JMP repo file and JMP scripts used to create the figure (Supplementary Figures 2-5).・Sfig2-5 Annual time series aggregation.xlsx・Sfig2 Study Type.jrp・Sfig4device type.jrp・Sfig3 Interventions Type.jrp・Sfig5Conditions type.jrp・Sfig2, 3 ,5_database.csv・Sfig2_JMP script_Study type.rtf・Sfig3_JMP script Interventions type.rtf・Sfig5_JMP script Conditions type.rtf・Sfig4_dataset.csv・Sfig4_JMP script_device type.rtf<br><b>Supplementary Figures 6-11 Mosaic diagram of intervention by condition</b><b>Supplementary tables 4-9 Analysis of contingency table for intervention by condition </b>JMP repot files used to create the figures(Supplementary Figures 6-11 ) and tables(Supplementary Tablea 4-9) , including the csv dataset of JMP repot files and JMP scripts.・Sfig6-11 Stable4-9 Intervention devicetype_conditions.jrp・Sfig6-11_Stable4-9_dataset.csv・Sfig6-11_Stable4-9_JMP script.rtf<br><b>Supplementary Figure 12. Distribution of enrollment</b>Includes Excel file, JMP repo file, csv dataset of JMP repo file and JMP scripts used to create the figure (Supplementary Figures 12).・Sfig12_Distribution of enrollment.jrp・Sfig12_Distribution of enrollment.csv・Sfig12_JMP script.rtf
DOI: 10.5281/zenodo.10820803
title: Wallin et al BINV

description: Data and code for analysis and figures - Wallin et al 2024 "Indications of reproductive disturbance by the invasive round goby on a native salmonid" BINV.
DOI: 10.5281/zenodo.10262684
title: Mechanical data of rotary shear experiments, temperature measurements, and temperature numerical models for the manuscript: "Mechanical energy dissipation during seismic dynamic weakening in calcite-bearing faults"

description: All data included in this data repository is ancillary to the manuscript "Energy dissipation during dynamic weakening in calcite-bearing fault rocks", submitted to Journal of Geophysical Research: Solid Earth. 
The data consists in time series of high velocity friction experiments run with SHIVA (INGV, Rome), time series acquired from a two-color pyrometer (UC3M), the synchronization of the two, and numerical models. The data format is .mat, proprietary to Matlab, but they can be easily accessed with Python (see link). Each .mat contains vector of the measured variables when opened from Matlab, or dictionaries when opened using the scipy.loadmat() function. 
SHIVA and PYRO red data (calibrated data), fin data (synchronized data), and shivaRED vect data (numerical model data) are included in this data repository in separate folders. Numerical models are grouped in subfolder by type of model (the relation fin data to model is 1:n). We included the scripts to convert SHIVA raw data into SHIVA red data (link to shivaUNIX), SHIVA and PYRO red data into fin data (/scripts/syncing2021.m), to obtain numerical models from fin data (link to shivaRED), and to plot data (/scripts/making plots.ipynb).
DOI: 10.5281/zenodo.10820300
title: DatabaseEndom32

description: The library of local nearrings of order 32
DOI: 10.5281/zenodo.10820301
title: DatabaseEndom32

description: The library of local nearrings of order 32
DOI: 10.5281/zenodo.10820774
title: Spherical harmonic models of the shape of the Moon [LOLA]

description: This archive contains four spherical harmonic models of the shape of the Moon truncated at different maximum spherical harmonic degrees. The highest resolution model has a maximum spherical harmonic degree of 5759, which was generated from a lunar shape model sampled at 64 pixels per degree in the DE421 mean Earth/polar axis coordinate frame.

The data used to generate these models are from the LOLA instrument on the Lunar Reconaissance Orbiter, as found in the file ldem_64_float.img on NASA's PDS website. This image file was first converted to netcdf format using the generic-mapping-tools function xyz2grd, and the resulting pixel registed map was then converted to a gridline registration using the function grdsample. Following this, the resulting netcdf file was read into the pyshtools software and expanded into spherical harmonics using the function SHCoeffs.expand(). The spherical harmonic functions were chosen to be "4pi" normalized and to exclude the Condon-Shortley phase factor of (-1)m. The units of the coefficients are meters.

The four files in this archive are



Moon_LOLA_shape_5759.bshc.gz

Moon_LOLA_shape_2879.bshc.gz

Moon_LOLA_shape_1439.bshc.gz

Moon_LOLA_shape_719.bshc.gz


The numbers 5759, 2879, 1439, and 719 in the filename refer to the maximum spherical harmonic degree of file, which corresponds to effective spatial resolutions of 64, 32, 16, and 8 pixels per degree, respectively. The files are stored in the binary "bshc" format as described in the pyshtools documentation and are furthermore compressed using gzip. The lower resolution models were generated by truncating the spherical harmonic coefficients of the highest resolution model.

Note that this shape model should not be used in conjunction with most gravity models of the Moon. The gravity models use a principal axis coordinate system that differs from the mean Earth/polar axis frame by about 1 km at the equator. For a principal axis coordinate system model, use Spherical harmonic models of the shape of the Moon (principal axis coordinate system).
DOI: 10.5281/zenodo.10796822
title: Spherical harmonic models of the shape of the Moon [LOLA]

description: This archive contains four spherical harmonic models of the shape of the Moon truncated at different maximum spherical harmonic degrees. The highest resolution model has a maximum spherical harmonic degree of 5759, which was generated from a lunar shape model sampled at 64 pixels per degree in the DE421 mean Earth/polar axis coordinate frame.

The data used to generate these models are from the LOLA instrument on the Lunar Reconaissance Orbiter, as found in the file ldem_64_float.img on NASA's PDS website. This image file was first converted to netcdf format using the generic-mapping-tools function xyz2grd, and the resulting pixel registed map was then converted to a gridline registration using the function grdsample. Following this, the resulting netcdf file was read into the pyshtools software and expanded into spherical harmonics using the function SHCoeffs.expand(). The spherical harmonic functions were chosen to be "4pi" normalized and to exclude the Condon-Shortley phase factor of (-1)m. The units of the coefficients are meters.

The four files in this archive are



Moon_LOLA_shape_5759.bshc.gz

Moon_LOLA_shape_2879.bshc.gz

Moon_LOLA_shape_1439.bshc.gz

Moon_LOLA_shape_719.bshc.gz


The numbers 5759, 2879, 1439, and 719 in the filename refer to the maximum spherical harmonic degree of file, which corresponds to effective spatial resolutions of 64, 32, 16, and 8 pixels per degree, respectively. The files are stored in the binary "bshc" format as described in the pyshtools documentation and are furthermore compressed using gzip. The lower resolution models were generated by truncating the spherical harmonic coefficients of the highest resolution model.

Note that this shape model should not be used in conjunction with most gravity models of the Moon. The gravity models use a principal axis coordinate system that differs from the mean Earth/polar axis frame by about 1 km at the equator. For a principal axis coordinate system model, use Spherical harmonic models of the shape of the Moon (principal axis coordinate system).