cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1048171.10fu
title: SH1048171.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15468/dl.wkhqur
title: Occurrence Download

description: A dataset containing 271 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "DatasetKey is one of (DIBA-Parc Natural del Montseny, CeDoc de Biodiversitat Vegetal: BCN-Cormophyta, CSIC-Real Jardín Botánico-Colección de Plantas Vasculares (MA), Sistema de Información de la vegetación Ibérica y Macaronésica, CSIC-Real Jardín Botánico-Anthos. Sistema de Información de las Plantas de España)",
 "Geometry POLYGON((-0.97179 40.29564,6.06248 40.29564,6.06248 43.10814,-0.97179 43.10814,-0.97179 40.29564))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Senecio inaequidens DC."
 ]
}

 The dataset includes 271 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007067-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t5k6tc
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phoca jubata Schreber, 1776",
 "Geometry POLYGON((170 20, 170 50, 120 50, 120 20, 170 20))",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007068-241126133413365/datasets/export for details.
DOI: 10.15468/dl.wzdvb7
title: Occurrence Download

description: A dataset listing the 5 species recorded in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Carcharodon carcharias (Linnaeus, 1758)"
 ]
}

 The dataset's 5 records were derived from 128 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007045-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tvqaws
title: Occurrence Download

description: A dataset containing 105 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ireland",
 "TaxonKey is Virgularia mirabilis (Müller, 1776)"
 ]
}

 The dataset includes 105 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007069-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57702/qhk9gdco
title: Untitled Dataset

description: No description available.
DOI: 10.15468/dl.uxad9a
title: Occurrence Download

description: A dataset listing the 161833 species recorded in GBIF matching the query:
{
 "and" : [
 "License is one of (CC0 1.0, CC-BY 4.0, CC-BY-NC 4.0)",
 "OccurrenceStatus is Present",
 "TaxonKey is Basidiomycota"
 ]
}

 The dataset's 161833 records were derived from 2615 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007047-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xfvaht
title: Occurrence Download

description: A dataset containing 20394 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "TaxonKey is Asparagus acutifolius L."
 ]
}

 The dataset includes 20394 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0130269-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q7z3p6
title: Occurrence Download

description: A dataset containing 108 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Ficedula buruensis (Hartert, 1899)"
 ]
}

 The dataset includes 108 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052330-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2hxjrv
title: Occurrence Download

description: A dataset containing 60 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "HasCoordinate is true",
 "TaxonKey is Prumnopitys montana (Humb. & Bonpl. ex Willd.) de Laub.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 60 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011050-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9t6y52
title: Occurrence Download

description: A dataset containing 6066 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Oryza rufipogon Griff.)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1943",
 "Year is less than or equal to 2023",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 }
 ]
}

 The dataset includes 6066 records from 78 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065805-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6gtbak
title: Occurrence Download

description: A dataset containing 493 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "TaxonKey is Ciconia nigra (Linnaeus, 1758)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 493 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014428-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c77byz
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Malus sieversii (Ledeb.) Roem.)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1943",
 "Year is less than or equal to 2023",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065809-231120084113126/datasets/export for details.
DOI: 10.15468/dl.pxpm2s
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is The InBIO Barcoding Initiative Database: DNA barcoding of Sialis sp. (Megaloptera) in Portugal: the missing tool to species identification"
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0343870-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.0cy9wi
title: Occurrence Download

description: A dataset containing 2570859 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tracheophyta",
 "HasCoordinate is TRUE",
 "HasGeospatialIssue is FALSE",
 "Country is Mexico"
 ]
}

 The dataset includes 2570859 records from 518 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023911-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hxg8mj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Malus sieversii (Ledeb.) Roem.)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1943",
 "Year is less than or equal to 2023",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065813-231120084113126/datasets/export for details.
DOI: 10.15468/dl.q78zkq
title: Occurrence Download

description: A dataset containing 145 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Bolivia (Plurinational State of)",
 "TaxonKey is Marmosops Matschie, 1916"
 ]
}

 The dataset includes 145 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0134290-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gxv6oe
title: Occurrence Download

description: A dataset containing 257 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Leptopelis flavomaculatus (Günther, 1864)"
 ]
}

 The dataset includes 257 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023913-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2gpcm3
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amorphophallus coudercii (Bogner) Bogner"
 ]
}

 The dataset includes 5 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006819-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zw7hcq
title: Occurrence Download

description: A dataset containing 23 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Portulaca lutea So I. ex Seem."
 ]
}

 The dataset includes 23 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0343872-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11246072
title: Testing script and data needed to run it for NeurIPS 2024 submission 18634

description: Dependencies:pip3 install torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu121 (get specific command for your environment from Pytorch website. If you can't use CUDA, you must edit the code to use the CPU.)pip install timmpip install opencv-pythonpip install pillowpip install joblibpip install scipypip install scikit-learn

Please make the following edits to run the script. Also, either move the models folder (https://zenodo.org/records/11245477) or change the directory.Also, add a folder to the directory with the testing script called "Results"

The testing script also includes the models for directionality, another statistic we attempted to predict. We did not report the values for directionality in our paper, so feel free to comment lines 2175-2253 and lines 2296-2308 to speed up the computation for the statistics presented in the paper. Due to time constraints, this version also doesn't include the class-modifying arguments for Brownian and straight-trajectory motion. These will be included in the testing script on the official release of DeepTrakStat on Github. line 485: sim_directory='ground_truth_trajectories/'line 486: tmate_directory='tmate_trajectories/'

lines 509-525:directories = ['simulated_imagery/1000part_16xspeed_heterogeneous/','simulated_imagery/1000part_32xspeed_heterogeneous/','simulated_imagery/1000part_4xspeed_heterogeneous/','simulated_imagery/2000part_16xspeed_heterogeneous/','simulated_imagery/2000part_32xspeed_heterogeneous/', ## Group 1'simulated_imagery/500part_16xspeed_heterogeneous/','simulated_imagery/500part_32xspeed_heterogeneous/','simulated_imagery/500part_4xspeed_heterogeneous/','simulated_imagery/sim111_brown/', 'simulated_imagery/sim112_brown/','simulated_imagery/sim113_brown/','simulated_imagery/sim114_brown/',  # Group 2'simulated_imagery/sim115_brown/','simulated_imagery/sim119_brown/','simulated_imagery/sim120_brown/','simulated_imagery/sim2201/', 'simulated_imagery/sim2210/', 'simulated_imagery/sim2215/','simulated_imagery/sim2220/','simulated_imagery/sim2230/','simulated_imagery/sim2235/','simulated_imagery/sim2240/', # Group 3'simulated_imagery/sim2241/','simulated_imagery/sim2242/','simulated_imagery/sim2243/','simulated_imagery/sim2244/', #Group 4'simulated_imagery/sim2251/','simulated_imagery/sim2252/','simulated_imagery/sim2253/','simulated_imagery/sim2254/','simulated_imagery/sim2255/','simulated_imagery/sim2256/','simulated_imagery/sim2257/','simulated_imagery/sim2258/','simulated_imagery/sim2259/','simulated_imagery/sim2260/', # Group 5'simulated_imagery/test1/','simulated_imagery/test2/','simulated_imagery/test5/','simulated_imagery/test8/' #Group 6]

line 606:        sorted_frames = sorted(files, key=lambda x: int(x[4:-4]))
DOI: 10.5281/zenodo.11246073
title: Testing script and data needed to run it for NeurIPS 2024 submission 18634

description: Dependencies:pip3 install torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu121 (get specific command for your environment from Pytorch website. If you can't use CUDA, you must edit the code to use the CPU.)pip install timmpip install opencv-pythonpip install pillowpip install joblibpip install scipypip install scikit-learn

Please make the following edits to run the script. Also, either move the models folder (https://zenodo.org/records/11245477) or change the directory.Also, add a folder to the directory with the testing script called "Results"

The testing script also includes the models for directionality, another statistic we attempted to predict. We did not report the values for directionality in our paper, so feel free to comment lines 2175-2253 and lines 2296-2308 to speed up the computation for the statistics presented in the paper. Due to time constraints, this version also doesn't include the class-modifying arguments for Brownian and straight-trajectory motion. These will be included in the testing script on the official release of DeepTrakStat on Github. line 485: sim_directory='ground_truth_trajectories/'line 486: tmate_directory='tmate_trajectories/'

lines 509-525:directories = ['simulated_imagery/1000part_16xspeed_heterogeneous/','simulated_imagery/1000part_32xspeed_heterogeneous/','simulated_imagery/1000part_4xspeed_heterogeneous/','simulated_imagery/2000part_16xspeed_heterogeneous/','simulated_imagery/2000part_32xspeed_heterogeneous/', ## Group 1'simulated_imagery/500part_16xspeed_heterogeneous/','simulated_imagery/500part_32xspeed_heterogeneous/','simulated_imagery/500part_4xspeed_heterogeneous/','simulated_imagery/sim111_brown/', 'simulated_imagery/sim112_brown/','simulated_imagery/sim113_brown/','simulated_imagery/sim114_brown/',  # Group 2'simulated_imagery/sim115_brown/','simulated_imagery/sim119_brown/','simulated_imagery/sim120_brown/','simulated_imagery/sim2201/', 'simulated_imagery/sim2210/', 'simulated_imagery/sim2215/','simulated_imagery/sim2220/','simulated_imagery/sim2230/','simulated_imagery/sim2235/','simulated_imagery/sim2240/', # Group 3'simulated_imagery/sim2241/','simulated_imagery/sim2242/','simulated_imagery/sim2243/','simulated_imagery/sim2244/', #Group 4'simulated_imagery/sim2251/','simulated_imagery/sim2252/','simulated_imagery/sim2253/','simulated_imagery/sim2254/','simulated_imagery/sim2255/','simulated_imagery/sim2256/','simulated_imagery/sim2257/','simulated_imagery/sim2258/','simulated_imagery/sim2259/','simulated_imagery/sim2260/', # Group 5'simulated_imagery/test1/','simulated_imagery/test2/','simulated_imagery/test5/','simulated_imagery/test8/' #Group 6]

line 606:        sorted_frames = sorted(files, key=lambda x: int(x[4:-4]))
DOI: 10.15468/dl.z3c277
title: Occurrence Download

description: A dataset containing 1045475 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Quercus robur L.)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1943",
 "Year is less than or equal to 2023",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 }
 ]
}

 The dataset includes 1045475 records from 2518 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0065812-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28822124
title: Monash Lens Article: Learning and unlearning: Harnessing social dynamics for community disaster recovery

description: On the back of the Los Angeles wildfires myself and Alan Reid produced this Lens Article to discuss educational elements for community disaster recovery.
DOI: 10.6084/m9.figshare.28822124.v1
title: Monash Lens Article: Learning and unlearning: Harnessing social dynamics for community disaster recovery

description: On the back of the Los Angeles wildfires myself and Alan Reid produced this Lens Article to discuss educational elements for community disaster recovery.
DOI: 10.15468/dl.gszzyp
title: Occurrence Download

description: A dataset containing 245390 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "License is one of (CC0 1.0, CC-BY 4.0, CC-BY-NC 4.0)",
 "OccurrenceStatus is Present",
 "TaxonKey is Amphibia"
 ]
}

 The dataset includes 245390 records from 652 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005318-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/cc12ytxr
title: CCDC 1011775: Experimental Crystal Structure Determination

description: Related Article: Shu-Liang Wang, Jie Ding, Fen Shi, Yin-Ping Liu, Bo Jiang, Ning Ma and Shu-Jiang Tu|2012|J.Heterocycl.Chem.|49|521|doi:10.1002/jhet.798
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/cc12yxtr
title: CCDC 1011865: Experimental Crystal Structure Determination

description: Related Article: Taiki Hanari, Naoyuki Shimada, Yasunobu Kurosaki, Neetipalli Thrimurtulu, Hisanori Nambu, Masahiro Anada, Shunichi Hashimoto|2015|Chem.-Eur.J.|21|11671|doi:10.1002/chem.201502009
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/cc12ytpj
title: CCDC 1011768: Experimental Crystal Structure Determination

description: Related Article: S KAMALESU|2014|CSD Communication|||
description: Related Article: H. Dhilshath Raihana, K. Karthick, T. Shankar, S. Kamalesu, A. Anish Babu, K. Swarnalatha|2022|J.Mol.Struct.|1264|133217|doi:10.1016/j.molstruc.2022.133217
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/cc12ytqk
title: CCDC 1011769: Experimental Crystal Structure Determination

description: Related Article: Mohammad Reza Mohammadizadeh, Maryam Alborz|2014|Tetrahedron Lett.|55|6808|doi:10.1016/j.tetlet.2014.10.055
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/cc12ytrl
title: CCDC 1011770: Experimental Crystal Structure Determination

description: Related Article: Shunsuke Furukawa,  Shunsuke Haga,  Junji Kobayashi,  and Takayuki Kawashima|2014|Org.Lett.|16|3228|doi:10.1021/ol501189u
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/cc12ytsm
title: CCDC 1011771: Experimental Crystal Structure Determination

description: Related Article: Shunsuke Furukawa,  Shunsuke Haga,  Junji Kobayashi,  and Takayuki Kawashima|2014|Org.Lett.|16|3228|doi:10.1021/ol501189u
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/cc12yttn
title: CCDC 1011772: Experimental Crystal Structure Determination

description: Related Article: Florian Medina,  Céline Besnard,  and Jérôme Lacour|2014|Org.Lett.|16|3232|doi:10.1021/ol5012532
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.17405422
title: NSM-HVit Dataset