cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.11402686
title: Visium HD Human Colorectal Cancer (FFPE) data release pathologist annotation

description: 10X Genomics released a spatial transcriptomic dataset of human colorectal cancer collected on the Visium HD platform. 

The dataset was divided into different spatial domains based on the accompanying HE stain and the expression of characteristic marker genes.

The pathologist's annotation was added with the help of Napari and the Spatialdata python package.

Every .csv file contains the Visium HD bin barcode and annotation for the respective level of binning.

In addition the HE image was segmented and bins were assigned to Nuclei for a pseudo single cell resolution, as described here.

This work was carried out for the SpaceHack2023 project and the data shared here is licensed CC0.
DOI: 10.5281/zenodo.11077885
title: Visium HD Human Colorectal Cancer (FFPE) data release pathologist annotation

description: 10X Genomics released a spatial transcriptomic dataset of human colorectal cancer collected on the Visium HD platform. 

The dataset was divided into different spatial domains based on the accompanying HE stain and the expression of characteristic marker genes.

The pathologist's annotation was added with the help of Napari and the Spatialdata python package.

Every .csv file contains the Visium HD bin barcode and annotation for the respective level of binning.

In addition the HE image was segmented and bins were assigned to Nuclei for a pseudo single cell resolution, as described here.

This work was carried out for the SpaceHack2023 project and the data shared here is licensed CC0.
DOI: 10.5281/zenodo.11077886
title: Visium HD Human Colorectal Cancer (FFPE) data release pathologist annotation

description: 10X Genomics released a spatial transcriptomic dataset of human colorectal cancer collected on the Visium HD platform. 

The dataset was divided into different spatial domains based on the accompanying HE stain and the expression of characteristic marker genes.

The pathologist's annotation was added with the help of Napari and the Spatialdata python package.

Every .csv file contains the Visium HD bin barcode and annotation for the respective level of binning.

This work was carried out for the SpaceHack2023 project and the data shared here is licensed CC0.
DOI: 10.15468/dl.1yteou
title: Occurrence Download

description: A dataset containing 111 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Micrurus browni browni"
 ]
}

 The dataset includes 111 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011739-190320150433242/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wlc3fs
title: Occurrence Download

description: A dataset containing 117925 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is KUBI Paleobotany Collection"
 ]
}

 The dataset includes 117925 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010512-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f6343w
title: Occurrence Download

description: A dataset containing 175 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (United States of America)",
 "BasisOfRecord is one of (Specimen)",
 "Year is greater than or equal to 1900",
 "TaxonKey is Bactrocera dorsalis (Hendel, 1912)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 175 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0424686-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eyt4tj
title: Occurrence Download

description: A dataset containing 6366 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Madagascar",
 "TaxonKey is Arecaceae"
 ]
}

 The dataset includes 6366 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010514-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y0sgjt
title: Occurrence Download

description: A dataset containing 9491 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "TaxonKey is Clinopodium menthifolium (Host) Stace",
 "TaxonKey is Calandrinia ciliata (Ruiz & Pav.) DC.",
 "TaxonKey is Calceolaria dichotoma Lam.",
 "TaxonKey is Calandrinia compressa Schrad. ex DC."
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 9491 records from 170 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011741-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zd47gk
title: Occurrence Download

description: A dataset containing 446129 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Ukraine"
 ]
}

 The dataset includes 446129 records from 599 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002154-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fvdesp
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Vicia villosa Roth",
 "Country is Mexico",
 "HasCoordinate is TRUE"
 ]
}

 The dataset includes 15 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011741-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hvavrn
title: Occurrence Download

description: A dataset containing 650 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "Year 1950-2018",
 "Geometry POLYGON((-78.09357 33.9707,-77.98782 33.80081,-77.88116 33.88866,-77.78091 34.17242,-77.742 34.34948,-77.87018 34.38273,-78.02994 34.25268,-78.07938 34.233,-78.06473 34.17848,-78.09357 33.9707))",
 "HasCoordinate is true",
 "TaxonKey is Amphibia",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 650 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010514-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c3b3fu
title: Occurrence Download

description: A dataset containing 696 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Festuca altaica Trin.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 696 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010903-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zpxg41
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Magnolia chapensis (Dandy) Sima",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 38 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011741-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zuwka5
title: Occurrence Download

description: A dataset containing 25572 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Felis silvestris Schreber, 1777"
 ]
}

 The dataset includes 25572 records from 171 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010514-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ytgj4t
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"within","geometry":"POLYGON ((79.815945 18.009783, 79.742088 18.004207, 79.670063 17.987619, 79.60165600000001 17.960428, 79.53856 17.923311, 79.482336 17.877185, 79.43437 17.823194, 79.395841 17.762673, 79.36769 17.697118, 79.350601 17.628147, 79.344984 17.557462, 79.350962 17.486803, 79.368376 17.417911, 79.39678499999999 17.352477, 79.435481 17.292109, 79.483504 17.238288, 79.539671 17.192332, 79.6026 17.155368, 79.670749 17.128299, 79.74244899999999 17.111789, 79.815945 17.10624, 79.88944100000001 17.111789, 79.96114 17.128299, 80.02928900000001 17.155368, 80.092219 17.192332, 80.148385 17.238288, 80.196409 17.292109, 80.23510400000001 17.352477, 80.263513 17.417911, 80.28092700000001 17.486803, 80.286906 17.557462, 80.281288 17.628147, 80.2642 17.697118, 80.23604899999999 17.762673, 80.197519 17.823194, 80.149553 17.877185, 80.093329 17.923311, 80.03023399999999 17.960428, 79.961827 17.987619, 79.889802 18.004207, 79.815945 18.009783))"},{"type":"equals","key":"CLASS_KEY","value":"212","matchCase":false},{"type":"greaterThanOrEquals","key":"YEAR","value":"2015","matchCase":false},{"type":"not","predicate":{"type":"in","key":"BASIS_OF_RECORD","values":["MATERIAL_CITATION","MATERIAL_SAMPLE","PRESERVED_SPECIMEN"],"matchCase":false}},{"type":"lessThanOrEquals","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"equals","key":"LICENSE","value":"CC BY 4.0","matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002050-260108223611665/datasets/export for details.
DOI: 10.15468/dl.qfbmbp
title: Occurrence Download

description: A dataset containing 63754 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Abies cephalonica Loudon, Abies cephalonica Link, 1842, Acacia dealbata Link, Acacia dealbata A.Cunn., Acacia mearnsii De Wild., Acacia mearnsii DeWild.)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000"
 ]
}

 The dataset includes 63754 records from 357 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021494-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hrn8hm
title: Occurrence Download

description: A dataset containing 96 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (DEU.10.41_1, DEU.10.24_1)",
 "OccurrenceStatus is Present",
 "TaxonKey is Saxicola rubicola (Linnaeus, 1766)",
 "Year 2014-2024"
 ]
}

 The dataset includes 96 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021497-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.euhcdx
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nymphoides disperma Aston"
 ]
}

 The dataset includes 9 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021498-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zqef2u
title: Occurrence Download

description: A dataset containing 3077 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Bangladesh, India, Thailand, Pakistan, Sri Lanka, Chinese Taipei, Philippines, Lao People’s Democratic Republic)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Bactrocera dorsalis (Hendel, 1912)"
 ]
}

 The dataset includes 3077 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021499-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.23v4m8
title: Occurrence Download

description: A dataset containing 229 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Colletotrichum lagenarium s., Colletotrichum lagenarium (Pass.) Ellis & Halst., Colletotrichum lagenaria (Pass.) Ell. & Halst., Colletotrichum lagenaria, Colletotrichum lagenaria, Colletotrichum lagenaria (Pass.) Ellis & Halst., Colletotrichum lagenaria (Pass.) Ellis & Halst., Colletotrichum lagenaria (Pass.) Ellis & Halst., Colletotrichum lagenaria (Pass.) Ellis & Halst., Colletotrichum lagenaria, Colletotrichum lagenaria (Pass.) Ellis & Halst., Colletotrichum lagenaria (Pass.) Ellis & Halst., Didymella bryoniae (Fuckel) Rehm)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 229 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021500-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qgzzca
title: Occurrence Download

description: A dataset containing 21715344 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 21715344 records from 593 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021378-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25375/uct.27824667
title: The data used in the 2024 sardine assessment

description: The data used in the South African sardine assessments are not all raw data. Some data have already been subjected to analyses and refinements. These associated calculations are often done “behind the scenes” and their details are seldom recorded. This lack of record can result in a discontinuity in the method used to calculate data for subsequent assessments, particularly if assumptions made in the calculations are not documented and/or a new person becomes responsible for developing the data to be used for input to the assessment. This document serves to record the generation of the data used in the sardine assessment carried out in 2024 – using data up to the end of 2023 ‐ from the raw data.
DOI: 10.25375/uct.27824667.v1
title: The data used in the 2024 sardine assessment

description: The data used in the South African sardine assessments are not all raw data. Some data have already been subjected to analyses and refinements. These associated calculations are often done “behind the scenes” and their details are seldom recorded. This lack of record can result in a discontinuity in the method used to calculate data for subsequent assessments, particularly if assumptions made in the calculations are not documented and/or a new person becomes responsible for developing the data to be used for input to the assessment. This document serves to record the generation of the data used in the sardine assessment carried out in 2024 – using data up to the end of 2023 ‐ from the raw data.
DOI: 10.15468/dl.7wdbmt
title: Occurrence Download

description: A dataset containing 49 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nymphoides elliptica Aston"
 ]
}

 The dataset includes 49 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021501-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fqjeet
title: Occurrence Download

description: A dataset containing 5544 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Elodea densa (Planch.) Casp., Koenigia polystachya (Wall. ex Meisn.) T.M.Schust. & Reveal, Hydrocharis laevigata (Humb. & Bonpl. ex Willd.) Byng & Christenh.)",
 "BasisOfRecord is one of (Observation, Human Observation, Material sample, Specimen, Unknown evidence, Machine Observation, Occurrence evidence)",
 "Year is greater than or equal to 1971",
 "Year is less than or equal to 2010",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5544 records from 349 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021496-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5zju6c
title: Occurrence Download

description: A dataset containing 41 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (DEU.10.41_1, DEU.10.24_1)",
 "OccurrenceStatus is Present",
 "TaxonKey is Populus nigra L.",
 "Year 2014-2024"
 ]
}

 The dataset includes 41 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021502-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ud5dfv
title: Occurrence Download

description: A dataset containing 368 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nymphoides exiliflora (F.Muell.) Kuntze"
 ]
}

 The dataset includes 368 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021503-241107131044228/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.27195051
title: Dataset and Code

description: Function to calculate flash droughts using an improved version of the FD identification method.
DOI: 10.6084/m9.figshare.27195051.v2
title: Dataset and Code

description: Function to calculate flash droughts using an improved version of the FD identification method.
DOI: 10.6084/m9.figshare.27195051.v1
title: Dataset and Code

description: Function to calculate flash droughts using an improved version of the FD identification method.
DOI: 10.5281/zenodo.11380969
title: Global Flood Forecasting (GFF)

description: Dataset from paper: Off to new Shores: A Dataset & Benchmark for (near-)coastal Flood Inundation Forecasting

Consists of target flood maps and various inputs used to predict said flood maps. Each input modality is contained in a separate zip file. Each zip file contains a collection of raster data, one file per ROI.

Files:



base.zip - Contains flood maps and meta-data (e.g. geolocations). Includes Kuro Siwo labels.

s1.zip - Contains Copernicus Sentinel-1 data from 2014-2020 obtained through Alaska Foundation, using an EarthData account.

era5.zip - Contains ERA5 and ERA5-Land data products obtained from Google Earth Engine (GEE), which was originally generated using Copernicus Climate Change Service information 2014-2020.

glofas.zip - Contains GLOFAS v4.0 data from Copernicus Climate Change Service's Climate Data Store (CDS).

hydroatlas.zip - Contains HydroATLAS v10 data. Rasterized and resampled to match ERA5-Land.

hand.zip - Contains HAND data (CC0 license). Resampled to match Sentinel-1.

dem.zip - Contains CopDEM GLO-30 data. Resampled to match Sentinel-1 and ERA5-Land.

extras.zip - Contains 4 folders of extra data:



vit-snunet-extra - Flood maps, meta-data and S1 of ROIs that fell outside era5 availability.

vit-snunet-raw - Raw floodmaps generated by Kuro Siwo model (after removing tiling effects, before other post-processing)

vit - Alternate flood maps; generated using FloodViT model only

snunet - Alternate flood maps; generated using SNUNet model only



worldcover.zip - Contains worldcover data (CC-BY license) resampled (nearest) to Sentinel-1. Only used at evaluation time. 


Instructions: 



Download whichever inputs you want to use.

Extract all in the same folder.

Point the code to that folder.


Licenses: The redistributed data products (s1, era5, hydroatlas, hand, dem and worldcover) retain their original licenses. They are, however, very permissive. Only HydroATLAS is not necessarily available for commercial use.
DOI: 10.5281/zenodo.11380970
title: Global Flood Forecasting (GFF)

description: Dataset from paper: Off to new Shores: A Dataset & Benchmark for (near-)coastal Flood Inundation Forecasting

Consists of target flood maps and various inputs used to predict said flood maps. Each input modality is contained in a separate zip file. Each zip file contains a collection of raster data, one file per ROI.

Files:



base.zip - Contains flood maps and meta-data (e.g. geolocations). Includes Kuro Siwo labels.

s1.zip - Contains Copernicus Sentinel-1 data from 2014-2020 obtained through Alaska Foundation, using an EarthData account.

era5.zip - Contains ERA5 and ERA5-Land data products obtained from Google Earth Engine (GEE), which was originally generated using Copernicus Climate Change Service information 2014-2020.

hydroatlas.zip - Contains HydroATLAS v10 data. Rasterized and resampled to match ERA5-Land.

hand.zip - Contains HAND data (CC0 license). Resampled to match Sentinel-1.

dem.zip - Contains CopDEM GLO-30 data. Resampled to match Sentinel-1 and ERA5-Land.

extras.zip - Contains 4 folders of extra data:



vit-snunet-extra - Flood maps, meta-data and S1 of ROIs that fell outside era5 availability.

vit-snunet-raw - Raw floodmaps generated by Kuro Siwo model (after removing tiling effects, before other post-processing)

vit - Alternate flood maps; generated using FloodViT model only

snunet - Alternate flood maps; generated using SNUNet model only



worldcover.zip - Contains worldcover data (CC-BY license) resampled (nearest) to Sentinel-1. Only used at evaluation time. 


Instructions: 



Download whichever inputs you want to use.

Extract all in the same folder.

Point the code to that folder.


Licenses: The redistributed data products (s1, era5, hydroatlas, hand, dem and worldcover) retain their original licenses. They are, however, very permissive. Only HydroATLAS is not necessarily available for commercial use.