cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.fpajgp
title: Occurrence Download

description: A dataset containing 5569 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Continent is Europe",
 "Year is greater than 1978",
 "Year is less than 2014",
 "HasGeospatialIssue is false",
 "TaxonKey is Betonica hirsuta L."
 ]
}

 The dataset includes 5569 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048442-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6zjep7
title: Occurrence Download

description: A dataset containing 637 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Limnophyton obtusifolium (L.) Miq."
 ]
}

 The dataset includes 637 records from 66 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009679-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qz99ud
title: Occurrence Download

description: A dataset containing 57 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ampelocissus polythyrsa (Miq.) Gagnep."
 ]
}

 The dataset includes 57 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024487-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.emw8vc
title: Occurrence Download

description: A dataset containing 39 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aristida brasiliensis Longhi-Wagner"
 ]
}

 The dataset includes 39 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048447-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jek8vy
title: Occurrence Download

description: A dataset containing 19 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Plectocomiopsis songthanhensis A.J.Hend. & N.Q.Dung"
 ]
}

 The dataset includes 19 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084533-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pdmgqe
title: Occurrence Download

description: A dataset containing 23 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Monochaetum rodriguezii Wurdack"
 ]
}

 The dataset includes 23 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043061-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jfmdfy
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ampelocissus racemifera (Jackes) Planch."
 ]
}

 The dataset includes 13 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024497-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sbbe5n
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aspidogyne platensis (Hauman) Meneguzzo"
 ]
}

 The dataset includes 18 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084481-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mja7y9
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Aristida burraensis B.K.Simon"
 ]
}

 The dataset includes 17 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048463-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3tys7y
title: Occurrence Download

description: A dataset containing 1019 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Chiroptera",
 "Country is Angola"
 ]
}

 The dataset includes 1019 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025886-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kxwswh
title: Occurrence Download

description: A dataset containing 243 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Philodryas aestiva (Duméril, Bibron & Duméril, 1854))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 243 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024488-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a4ypfr
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Dendropsophus araguaya (Napoli & Caramaschi, 1998)"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084472-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qt5fyd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepanthes bipollicaris Luer & Hirtz"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006213-230530130749713/datasets/export for details.
DOI: 10.15468/dl.yv3ape
title: Occurrence Download

description: A dataset containing 9607 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "Country is one of (United States of America, Mexico, Canada)",
 "Year is greater than 1978",
 "Year is less than 2014",
 "HasGeospatialIssue is false",
 "TaxonKey is Centroscyllium fabricii (Reinhardt, 1825)"
 ]
}

 The dataset includes 9607 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048448-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gkv73r
title: Occurrence Download

description: A dataset containing 22901 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CHN",
 "Year 1879-1911"
 ]
}

 The dataset includes 22901 records from 163 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025896-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15682344
title: [Dataset] On the Movement of the Honeybee Queen in the Hive

description: README for the "On the Movement of the Honeybee Queen in the Hive" Dataset

Dataset Overview

This dataset supports the analyses and experiments of the paper:

Blaha et al., "On the Movement of the Honeybee Queen in the Hive," Scientific Reports 2025. DOI: 10.1038/s41598-025-07093-4.

The dataset provides observations of three honeybee queens within an observation hive captured using an automated system at the end of the summer season in 2022.  The code for the relevant analysis can be found under DOI: 10.5281/zenodo.15683480.

Data Collection Methodology

For details on the data collection system, please see the Supplementary Information of the main paper, available at DOI: 10.1038/s41598-025-07093-4, also appended to the data here.

Data Structure

The dataset is organized into directories 2022-MM-DD-HH-MM-SS based on hours (rosbags) in which data was recorded. In each such directory, there are further three hive_X directories containing a CSV file detections_hive_X_with_pred.csv with the detection data itself.

File Contents

Files contain individual queen bee detections and have the following columns:



idx: Identifier of entry in the csv.

stamp: Timestamp of the detection in Unix epoch nanoseconds (UTC).

frame_id: Camera id (hive and comb numbers).

x: X-coordinate of the bee's position in meters.

y: Y-coordinate of the bee's position in meters.

whycomb_state: documented in detail in the supplementary.

detection_confidence: documented in detail in the supplementary.


Data Units: Timestamps are in Unix epoch nanoseconds (UTC), spatial coordinates are in meters.

License and Citation

To attribute this dataset in your research, please cite the corresponding paper:

Blaha et al., "On the Movement of the Honeybee Queen in the Hive," Scientific Reports 2025. DOI: DOI: 10.1038/s41598-025-07093-4.
DOI: 10.5281/zenodo.15682343
title: [Dataset] On the Movement of the Honeybee Queen in the Hive

description: README for the "On the Movement of the Honeybee Queen in the Hive" Dataset

Dataset Overview

This dataset supports the analyses and experiments of the paper:

Blaha et al., "On the Movement of the Honeybee Queen in the Hive," Scientific Reports 2025. DOI: 10.1038/s41598-025-07093-4.

The dataset provides observations of three honeybee queens within an observation hive captured using an automated system at the end of the summer season in 2022.  The code for the relevant analysis can be found under DOI: 10.5281/zenodo.15683480.

Data Collection Methodology

For details on the data collection system, please see the Supplementary Information of the main paper, available at DOI: 10.1038/s41598-025-07093-4, also appended to the data here.

Data Structure

The dataset is organized into directories 2022-MM-DD-HH-MM-SS based on hours (rosbags) in which data was recorded. In each such directory, there are further three hive_X directories containing a CSV file detections_hive_X_with_pred.csv with the detection data itself.

File Contents

Files contain individual queen bee detections and have the following columns:



idx: Identifier of entry in the csv.

stamp: Timestamp of the detection in Unix epoch nanoseconds (UTC).

frame_id: Camera id (hive and comb numbers).

x: X-coordinate of the bee's position in meters.

y: Y-coordinate of the bee's position in meters.

whycomb_state: documented in detail in the supplementary.

detection_confidence: documented in detail in the supplementary.


Data Units: Timestamps are in Unix epoch nanoseconds (UTC), spatial coordinates are in meters.

License and Citation

To attribute this dataset in your research, please cite the corresponding paper:

Blaha et al., "On the Movement of the Honeybee Queen in the Hive," Scientific Reports 2025. DOI: DOI: 10.1038/s41598-025-07093-4.
DOI: 10.15468/dl.pbqrvu
title: Occurrence Download

description: A dataset containing 738374 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Machine Observation, Observation, Human Observation, Occurrence evidence)",
 "GadmGid is one of (GBR, IRL, SWE, NOR, FIN, RUS, EST, LVA, LTU, BLR, UKR, ROU, MDA, POL, CZE, SVK, AUT, HUN, DEU, ESP, PRT, ITA, FRA, SVN, HRV, CHE, BIH, SRB, MNE, XKO, MKD, ALB, BGR, GRC, TUR, GEO, ARM, AZE, IRN, TKM, KAZ, UZB, KGZ, TJK, MNG, PAK.5_1, Z06.6_1, Z01.14_1, CHN.28_1, CHN.11_1, PRK, JPN)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Actitis hypoleucos",
 "Year 2015-2024"
 ]
}

 The dataset includes 738374 records from 1190 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024182-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bmd92v
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cornu aspersum",
 "Country is Micronesia (Federated States of)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024223-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jf7m5e
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Echium plantagineum",
 "Country is Tanzania, United Republic of",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024224-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8gsetp
title: Occurrence Download

description: A dataset containing 3863 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-75.10185 10.67819,-75.10156 10.67429,-75.10093 10.67042,-75.09996 10.66662,-75.09866 10.66292,-75.09703 10.65935,-75.09509 10.65593,-75.09286 10.65269,-75.09035 10.64965,-75.08758 10.64684,-75.08457 10.64427,-75.08134 10.64198,-75.07792 10.63996,-75.07434 10.63825,-75.07062 10.63686,-75.06679 10.63578,-75.06287 10.63504,-75.05891 10.63464,-75.05493 10.63458,-75.05096 10.63486,-75.04702 10.63547,-75.04316 10.63643,-75.03939 10.63771,-75.03576 10.63931,-75.03228 10.64121,-75.02898 10.6434,-75.02588 10.64587,-75.02302 10.64859,-75.02041 10.65155,-75.01808 10.65472,-75.01603 10.65808,-75.01429 10.6616,-75.01287 10.66526,-75.01177 10.66903,-75.01102 10.67287,-75.01061 10.67676,-75.01054 10.68068,-75.01083 10.68458,-75.01146 10.68845,-75.01242 10.69225,-75.01373 10.69595,-75.01535 10.69952,-75.01729 10.70294,-75.01952 10.70619,-75.02203 10.70923,-75.02481 10.71204,-75.02782 10.7146,-75.03104 10.7169,-75.03446 10.71891,-75.03805 10.72062,-75.04177 10.72202,-75.0456 10.72309,-75.04951 10.72383,-75.05348 10.72424,-75.05746 10.7243,-75.06144 10.72402,-75.06537 10.7234,-75.06924 10.72245,-75.073 10.72117,-75.07664 10.71957,-75.08012 10.71767,-75.08342 10.71547,-75.08651 10.713,-75.08937 10.71028,-75.09198 10.70732,-75.09432 10.70415,-75.09637 10.70079,-75.09811 10.69727,-75.09953 10.69361,-75.10062 10.68984,-75.10137 10.686,-75.10178 10.6821,-75.10185 10.67819))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 3863 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024227-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fzdfsx
title: Occurrence Download

description: A dataset containing 10070 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "TaxonKey is Calvatia"
 ]
}

 The dataset includes 10070 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024226-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9a57gk
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cornu aspersum",
 "Country is Fiji",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024225-250711103210423/datasets/export for details.
DOI: 10.25345/c5h12vm4m
title: MassIVE MSV000098535 - test_this is the first time test to show the workflow for submitting proteomics raw data files and get an accession number
title: test_this is the first time test to show the workflow for submitting proteomics raw data files and get an accession numbertest_this is the first time test to show the workflow for submitting proteomics raw data files and get an accession numbertest_this is the first time test to show the workflow for submitting proteomics raw data files and get an accession numbertest_this is the first time test to show the workflow for submitting proteomics raw data files and get an accession number
DOI: 10.15468/dl.a7cfj6
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:ADO3280"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024228-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.85tsp8
title: Occurrence Download

description: A dataset containing 55252 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aves",
 "Geometry POLYGON ((-92.46066 18.63223, -92.43897 18.57471, -92.423 18.54089, -92.42039 18.49107, -92.39609 18.47138, -92.35743 18.44969, -92.35337 18.43944, -92.33668 18.44481, -92.31637 18.45214, -92.22449 18.43581, -92.14474 18.43259, -92.10604 18.42354, -92.11028 18.22995, -92.11293 18.22418, -92.15807 18.2199, -92.14018 18.13923, -92.11023 18.0954, -92.07874 18.08311, -92.01687 18.09158, -91.79189 18.1567, -91.65225 18.21245, -91.30801 18.3057, -91.24257 18.34357, -91.23799 18.34733, -91.23298 18.35208, -91.22796 18.35683, -91.22218 18.3622, -91.18382 18.41358, -91.18198 18.4189, -91.1797 18.42521, -91.17738 18.43185, -91.13985 18.56639, -91.11326 18.70619, -91.08178 18.83951, -91.08117 18.84697, -91.08065 18.98701, -91.08159 19.02866, -91.06788 19.07402, -91.10789 19.04992, -91.11062 19.03832, -91.24928 18.96183, -91.37607 18.90378, -91.41708 18.86874, -91.49763 18.78202, -91.53989 18.77815, -91.69848 18.70033, -91.77024 18.67156, -91.84367 18.65807, -91.83593 18.6384, -91.85288 18.61183, -91.90811 18.63464, -91.94703 18.69604, -91.97757 18.70524, -92.14746 18.69112, -92.314 18.67313, -92.44476 18.65755, -92.46694 18.65315, -92.46066 18.63223))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 }
 ]
}

 The dataset includes 55252 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024193-250711103210423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15356298
title: Ecological and Evolutionary Predictors of Dorsal Colouration in Lagomorphs

description: Repository Overview

This repository accompanies the published study and contains all relevant scripts and datasets organized by analytical step. Each folder corresponds to a specific component of the analysis and is described below.

1. phylogeny/ — Lagomorpha Phylogeny

Files:





NodeDated_Allspp_1000.tre: A set of 1,000 dated phylogenetic trees.




lagomorpha_mcc.tre: Maximum clade credibility (MCC) tree computed from the tree set.



2. final_dataset/ — Species-Level Dataset

File:





final_df.csv: Final dataset compiling species-level coloration and environmental variables.



Key columns:





Taxonomy & Metadata:





species_name: Scientific name.




family: Taxonomic family (e.g., Leporidae, Ochotonidae).




pic_num: Number of photos used per species.




pelage_change: Indicates if the species undergoes seasonal coat color change.




color_inputation: Indicates whether coloration values were imputed.






Coloration Metrics:





Lightness:





rgb_mean, rgb_median, rgb_sd




cie_l_mean, cie_l_median, cie_l_sd




hsv_v_mean, hsv_v_median, hsv_v_sd






Redness:





redness_mean, redness_median, redness_sd








Environmental Variables:





temp: Mean annual temperature (°C)




precipitation: Mean annual precipitation (mm)




forest_struct: Forest vertical structure index




uv_b: UV-B radiation






Geographic Data:





latitude, longitude: Centroid coordinates of each species’ range





3. color_extraction/ — Specimen-Level Color Estimates

Files:





lightness_specimens.csv: Lightness values for individual photos.




redness_specimens.csv: Redness values for individual photos.



4. ancestral_reconstruction/ — Ancestral Color Estimation

File:





ancestral_reconstruction.R: Script to estimate ancestral states for lightness and redness.



Output:





Reproduces Figure 1 of the main manuscript.



5. phylogenetic_regression/ — Bayesian Phylogenetic Regression

Files:





brms_darkness.R: Bayesian model for analyzing lightness.




brms_redness.R: Bayesian model for analyzing redness.



Output:





Reproduces Figures 3 and 4 of the main manuscript.



6. spatial_coloration/ — Geographic Visualization of Coloration

File:





maps.R: Script for mapping species coloration based on geographic centroids, highlighting differences between Leporidae and Ochotonidae.



Output:





Reproduces Figures 2 of the main manuscript.