cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.11360728
title: Dynamic Time Warping Proximity Analysis (DTW-PA)

description: MANUSCRIPT SUPPLEMENTARY MATERIAL

This supplementary material is provided for the manuscript titled Full-waveform inversion cycle-skipping mitigation with dynamic time warping, Part 1: a method for a proximity analysis between the current and the observed data, submitted to the journal Pure and Applied Geophysics. For additional context and details, please refer to the manuscript.
description: SUPPLEMENTARY RESULTS



The files provided include the results of the FWI numerical simulations presented in Table 2 of the manuscript. Due to Zenodo's size limitations, some files could not be uploaded, as:



Seismograms from the l_bfgs_b_... folders.

DTW best path results from the l_bfgs_b_..., initial_proximity_eval, and proximity_eval... folders.


The l_bfgs_b_... folders contain data for each multiscale step. The folder name indicates the low-pass frequency filter (FF) applied at each step and the intermediate step (IS) (e.g., l_bfgs_b_FF-10.0Hz_IS-1).

The initial_proximity_eval folders contain files from the Dynamic Time Warping Proximity Analysis (DTW-PA) conducted prior to the first multiscale step using a 5 Hz low-pass filter. These files assess the initial model's proximity to the target data.

The proximity_eval... folders contain DTW-PA results used to evaluate the low-pass frequency filters for subsequent multiscale steps. Each folder name specifies the filter tested (e.g., proximity_eval-10.0Hz).

CODE

Each simulation folder contains a code subfolder, which includes the scripts and code used to run the numerical simulations. The following files are included in each folder:



A .py script for running the FWI numerical simulation.

..._pa_plt.py to generate DTW-PA figures.

..._plt.py to produce additional figures.

A .npy velocity model, when needed.

The requirements.txt.


Additionally, .slurm files are provided, as the simulations were executed on a cluster using the SLURM job scheduler. These files are supplied AS-IS and must be adjusted to fit your specific computational environment.
description: SOFTWARE INSTALLATION

To run the provided codes, follow these steps to set up a virtual Python environment:



Ensure Python 3.8 is installed and set as your default Python3 version.

Install virtualenv if it is not already installed.

Execute the following commands:




python3 -m venv my_venv

source my_venv/bin/activate

python -m pip install --upgrade pip

pip install -r requirements.txt


In each code folder is a requirements.txt file.
description: HARDWARE REQUIREMENTS







These simulations require substantial computational resources. Running them on a personal computer is not recommended.

 

We used five Intel Xeon Gold 6148 nodes for the numerical simulations, each running at 2.4 GHz with 27 MB cache and 10.4 GT/s. Each node had 192 GB of DDR4 2,666 MHz ECC Reg memory. Due to the scheduler using one node, only four were used for FWI computations. Similarly, the scheduler limited the number of workers employed for shot parallelisation.
DOI: 10.15468/dl.ab8d9r
title: Occurrence Download

description: A dataset containing 3663 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-65.04653 21.09441,87.04653 21.09441,87.04653 81.90559,-65.04653 81.90559,-65.04653 21.09441))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Eurydice pulchra Leach, 1816"
 ]
}

 The dataset includes 3663 records from 113 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000160-250117142028555/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25810/gyv-zg57.81
title: New Zealand Newspaper Coverage of Climate Change or Global Warming, 2000-2024 - December 2024

description: The Media and Climate Change Observatory Data monitors 127 sources (across newspapers, radio and TV) in 59 countries in seven different regions around the world. Data is assembled by accessing archives through the Lexis Nexis, Proquest and Factiva databases via the University of Colorado libraries. More information may be found at: http://mecco.colorado.edu.
DOI: 10.5281/zenodo.14679951
title: Molecular dynamics simulations of NHE9 with PIP2
DOI: 10.5281/zenodo.14679952
title: Molecular dynamics simulations of NHE9 with PIP2
DOI: 10.5281/zenodo.14679941
title: Benifits of advancing the Riemann Hypothesis

description: The list of benifits from progressing the Riemann Hypothesis and cross sectional findings is just brilliant for this generation and many more to come
DOI: 10.5281/zenodo.14679942
title: Benifits of advancing the Riemann Hypothesis

description: The list of benifits from progressing the Riemann Hypothesis and cross sectional findings is just brilliant for this generation and many more to come
DOI: 10.17632/44zpkbrpxb.2
title: Credal Dog-4

description: Most datasets used for classification use hard labels. Credal Dog-4 was labeled uncertainly and imprecisely by contributors during crowdsourcing campaigns. Resulting in richer labels, modeled with the theory of belief funtions, which generalizes several reasoning frameworks with uncertainty. These datasets can be used with classical models using hard labels but also with probabilistic, fuzzy or even evidential models.

Dataset:
4 classes, 400 observations, 47 features (or raw pictures)

When using the dataset please cite :
A. Hoarau, C. Thierry, A. Martin, J.-C. Dubois, Y. Le Gall, "Datasets with rich labels for machine learning", in: FUZZ-IEEE, 2023.

Credal Dog-4 dataset
├── data
│ ├── classes.csv: Classes of the dataset
│ ├── X.csv: Features of the dataset
│ ├── X_512.csv: Learge 512 features vector of the dataset
│ ├── X_pictures.csv: Raw features (Pictures themselves)
│ ├── y.csv: Rich labels
│ └── y_true.csv: True labels
└── extra
 ├── y_hard.csv: Hard labels given during a new campaign
 ├── DATA_imperfect.csv: Imperfect answers given during the campaign
 ├── ITERATION_imperfect.csv: Imperfect 2nd step answers given during the campaign
 ├── EVENT_imperfect.csv: Contributors events
 ├── ID_imperfect.csv: Contributors IDs
 └── DATA_perfect.csv: Precise answers given during a new campaign

Credal Dog-7:
https://data.mendeley.com/datasets/4hz3wx6wm5
Credal Dog-2:
https://data.mendeley.com/datasets/95mmjfrsyh
Credal Bird-10:
https://data.mendeley.com/datasets/9sz5vm8g7h
Credal Bird-2:
https://data.mendeley.com/datasets/v8k6c5s9cy
DOI: 10.5281/zenodo.14679884
title: Teachers as Textbook Developers: Unraveling Tertiary English Teachers' Learning in a School-Based Textbook Development Project
DOI: 10.5281/zenodo.14679885
title: Teachers as Textbook Developers: Unraveling Tertiary English Teachers' Learning in a School-Based Textbook Development Project
DOI: 10.15468/dl.nsjatv
title: Occurrence Download

description: A dataset containing 371 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Occurrence evidence, Observation)",
 "Country is one of (Chinese Taipei, Hong Kong)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Lithocarpus konishii (Hayata) Hayata"
 ]
}

 The dataset includes 371 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000161-250117142028555/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/dfbrc8dtrm.2
title: Late Miocene to Early Pliocene Paleoceanographic evolution of the Central South Pacific: A deep-sea benthic foraminiferal perspective

description: Data on the major benthic foraminiferal percentage abundance from Site U1541 were generated for this study covering Late Miocene to Early Pliocene epoch. Data regarding dominant benthic foraminiferal abundance (%, present in &gt;7% in 7 or more sample), oxic species assemblage (%), suboxic species assemblage (%), sedimentation rate (cm kyr-1), Dry Bulk Density (g cm-3), Orbulina universa (&gt;125µm), Ostracoda (&gt;125µm), ice-rafted debris (IRD) & detrital (&gt;125µm), and benthic foraminifera (&gt;125µm) per gram of dry sediment, and benthic foraminiferal accumulation rate (BFAR, g cm-2 kyr-1), organic flux (Jsf, gC cm-2 kyr-1), paleoproductivity (PP, gC cm-2 kyr-1), total organic carbon (%), CaCO3 (%), coarse fraction (%, &gt;63µm), and Coarse Fraction Accumulation Rate (CFAR, g cm-2 kyr-1) are presented.
DOI: 10.17632/dfbrc8dtrm.1
title: IODP_Site_U1541_Multiproxy_Data

description: This dataset contains the percentage abundance of dominant benthic foraminifera (%) and Biofacies abundance (%) at International Ocean Drilling Program Site U1541 in the Central South Pacific (Southern Ocean) for the Late Miocene to Pliocene period. An additional datasheet contains Orbulina spp., Ostracoda, Ice Rafted Debris & detrital, Benthic foraminifera (&gt;125μm), Planktic foraminifera (&gt;125μm), and Planktic vs Benthic foraminifera ratio (&gt;125μm) in per gram of dry sediment, finer fraction (&lt;63μm; in %), Total Organic Carbon (%), and CaCO₃ (%) for the same period from the same Site.
DOI: 10.15468/dl.d6yxfa
title: Occurrence Download

description: A dataset containing 71 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Plantae)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Geometry POLYGON((1.694738 41.821071, 1.694738 41.835623, 1.718007 41.835623, 1.718007 41.821071, 1.694738 41.821071))"
 ]
}

 The dataset includes 71 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000163-250117142028555/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wqe4wc
title: Occurrence Download

description: A dataset containing 7375 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "MediaType is Image",
 "HasCoordinate is false",
 "HasGeospatialIssue is false",
 "FamilyKey is Boraginaceae",
 "GenusKey is Hackelia Opiz ex Berchtold"
 ]
}

 The dataset includes 7375 records from 134 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000162-250117142028555/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sn5sye
title: Occurrence Download

description: A dataset containing 4544 species occurrences available in GBIF matching the query:
{
 "and" : [
 "PublishingOrg is da86174a-a605-43a4-a5e8-53d484152cd3",
 "TaxonKey is Heracleum mantegazzianum Sommier & Levier"
 ]
}

 The dataset includes 4544 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000164-250117142028555/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/p6fjgvb2yv.1
title: Methionine-driven methylation modification overcomes plasmid-mediated high-level tigecycline resistance

description: To explore the impact of tet(X4) expression on bacterial metabolomic state, tet(X4) gene was cloned into a high-copy plasmid, pUC19, to generate pUC19-tet(X4). An empty vector without tet(X4) (pUC19) was included as the control. Subsequently, tet(X4) and pUC19 plasmid was transformed into reference strains E. coli DH5α. Then, we performed metabolomic profiling of tet(X4)-negative and -positive bacteria using Gas Chromatography-Mass Spectrometry (GC-MS).
DOI: 10.15468/dl.n8h34w
title: Occurrence Download

description: A dataset containing 774950 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is one of (Oligia versicolor (Borkhausen, 1792), Oncocera semirubella Scopoli, 1763, Operophtera brumata (Linnaeus, 1758), Operophtera fagata (Scharfenberg, 1805), Opisthograptis luteolata (Linnaeus, 1758))",
 "Year is greater than or equal to 1990"
 ]
}

 The dataset includes 774950 records from 842 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000140-250117142028555/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mjowrj
title: Occurrence Download

description: A dataset containing 10243 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Helix pomatia Linnaeus, 1758"
 ]
}

 The dataset includes 10243 records from 375 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014272-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cm3rb4
title: Occurrence Download

description: A dataset containing 159 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gymnostoma webbianum (Miq.) L.A.S.Johnson"
 ]
}

 The dataset includes 159 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019225-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ejhvax
title: Occurrence Download

description: A dataset listing the 0 species recorded in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Fauna y Flora de Cinaruco - 2014- 2016",
 "TaxonKey is Aves"
 ]
}

 The dataset's 0 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039339-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rucn0x
title: Occurrence Download

description: A dataset containing 5198 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Mastigodryas Amaral, 1935"
 ]
}

 The dataset includes 5198 records from 120 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014272-171219132708484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w6qtjw
title: Occurrence Download

description: A dataset containing 229 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gratiola japonica Miq."
 ]
}

 The dataset includes 229 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019275-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mfh8cx
title: Occurrence Download

description: A dataset containing 468 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Justicia adhatoda L.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 468 records from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039355-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pwjhjs
title: Occurrence Download

description: A dataset containing 2590 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lindera megaphylla Hemsl.",
 "Year is greater than or equal to 1900",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2590 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019236-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.trimfg
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2015",
 "Month is greater than or equal to January",
 "Country is Australia",
 "TaxonKey is Opuntia Mill."
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014273-160118175350007/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yjrgxz
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-49.95538 -1.79783,-50.34407 -2.31045,-50.33843 -3.88211,-48.73861 -4.09054,-48.04009 -2.64281,-48.66538 -1.34154,-49.95538 -1.79783))",
 "TaxonKey is Bothrops atrox (Linnaeus, 1758)"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005580-240216155721649/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.av1t30
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Magnolia schiedeana Schltdl.",
 "Geometry POLYGON((-100.129394 19.963022,-100.129394 18.177168,-96.800537 18.177168,-96.800537 19.963022,-100.129394 19.963022))",
 {
 "or" : [
 "HasGeospatialIssue is false",
 "HasGeospatialIssue is true"
 ]
 },
 "HasCoordinate is true"
 ]
}

 The dataset includes 48 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014274-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y9zyhg
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heritiera catappa Kosterm."
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019247-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mw2vd7
title: Occurrence Download

description: A dataset containing 31028 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hyoscyamus niger L.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 31028 records from 494 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039079-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2imo4d
title: Occurrence Download

description: A dataset containing 171 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Thorius minutissimus Taylor, 1949"
 ]
}

 The dataset includes 171 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014274-160311141623029/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3zgcjt
title: Occurrence Download

description: A dataset containing 34 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Helicanthes elastica (Desr.) Danser"
 ]
}

 The dataset includes 34 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019252-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k5y5ce
title: Occurrence Download

description: A dataset listing the 288 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-75.73137 6.02614,-75.67838 6.02614,-75.67838 6.07555,-75.73137 6.07555,-75.73137 6.02614))",
 "OccurrenceStatus is Present",
 "TaxonKey is Aves"
 ]
}

 The dataset's 288 records were derived from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037922-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.omysui
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sobennikoffia poissoniana H.Perrier"
 ]
}

 The dataset includes 8 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014274-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r6y6hw
title: Occurrence Download

description: A dataset containing 43 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heritiera fomes Banks"
 ]
}

 The dataset includes 43 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019280-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bijaoh
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Thorius minydemus Hanken & Wake, 1998"
 ]
}

 The dataset includes 14 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014275-160311141623029/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x55tej
title: Occurrence Download

description: A dataset containing 94 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hapaline benthamiana Schott"
 ]
}

 The dataset includes 94 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019295-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yu4p2c
title: Occurrence Download

description: A dataset containing 2779 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hydrolea spinosa L.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2779 records from 207 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039069-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.imkrbz
title: Occurrence Download

description: A dataset containing 14604 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Liophis Wagler, 1830"
 ]
}

 The dataset includes 14604 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014275-171219132708484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4fy98s
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tropidurus pinima (Rodrigues, 1984)"
 ]
}

 The dataset includes 27 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0279967-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.