cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.p5c04/1
title: Blanding's turtle location and microsatellite data

description: This dataset includes location and genetic data for Blanding's turtles sampled in Wood County, WI. The first sheet ("NestingFemaleData") includes data for females captured during terrestrial nesting surveys. Nesting areas are as described in the publication; any turtle captured outside of the seven main nesting areas identified are listed as "other". The second sheet ("NonNestingData") includes all other turtles, including adult males, adult females captured in aquatic locations, and juveniles of unknown sex. For all location data, "X" and "Y" are UTM coordinates (UTM zone 15N, WGS84 datum). When individuals were captured more than once, coordinates represent the centroid of all capture points. Missing data for microsatellites are represented as "xxx".
DOI: 10.5061/dryad.pk30p/1
title: Data on morphology and SNPs

description: SNP data files (labeled by gene_pop) of Ischnura asiatica and I. senegalensis. Data used for BaysAss is labeled by "BaysAss". Morphology data include both abdomen length of wing length.
DOI: 10.5061/dryad.rj66s/1
title: Dijkstra et al 2016
DOI: 10.5061/dryad.s1j6b/2
title: Segmentation results
DOI: 10.5061/dryad.vq744/1
title: Euoniticellus_microbiome_dataset

description: This file contains quality trimmed, demultiplexed sequences without barcodes and primers (seqs.fna) produced from using default parameters in split_libraries_fastq.py script in QIIME 1.8.0; and a metadata mapping file (mapping.txt) for all the samples.
DOI: 10.5061/dryad.vq744/2
title: OTU table

description: OTU table for bacterial communities of samples from Euoniticellus intermedius and Euoniticellus triangulatus, after quality checking and removal of OTUs with abundance less than 0.005%.
DOI: 10.5061/dryad.1f1rc/1
title: Multi-electrode retinal ganglion cell population spiking data

description: The file contains spike time data from multi-electrode array recordings of salamander retinal ganglion cells under four stimulus conditions: a white noise checkerboard, a repeated natural movie, a non-repeated natural movie, and a bar exhibiting random one-dimensional motion. For each experiment, spike time data is provided in the file 'data.mat' and information necessary to reconstruct the stimulus and align to spike times is contained in 'aux_data' where relevant. All recordings were sampled at 10 kHz. Data is in Matlab .mat format.
DOI: 10.5061/dryad.23pk1/1
title: Ninnes et al. DATA

description: A workbook containing three spreadsheets, one with data for the main experiment, one with data for the supplementary experiment, and one with reflectance data. Column headers are easily interpretable.
DOI: 10.5061/dryad.2qd2g/1
title: Data used in the cross-population analyses

description: Sheet 1: Data of studied populations. n is number of individual geckos examined.  Abundance of M. kotschyi is the number of geckos found per hour of search by YI. Abundances of H. turcicus and vipers are the numbers of animals found per day of search per person searching. Viper abundance is given in parentheses in the viper presence column. Predator richness includes all potential mammalian, avian, and reptilian gecko-predators, given in parentheses from left to right, respectively. Sheet 2: Data for non-significant predictors and sex-specific autotomy frequencies.
DOI: 10.5061/dryad.30mb4/1
title: Site occupancy data from rocky intertidal communities

description: Data file written in the Rdump format. This is a sort of text file and can be loaded into R by source("dumpdata.R"), defining the following objects:* Y : a 3-dimensional array of observation of site occupancy state.      Each dimension represents: [Quadrat, Site, Time].* x : a matrix in which each row representing spatial coordinate of a site.* I : an integer representing the number of sites per quadrat.* J : an integer representing the number of quadrats.* S : a vector indicating the number of states modeled in each quadrat.* T : an integer representing the number of time points.* state_list : a list of vectors representing ecological states modeled in each quadrat.
DOI: 10.5061/dryad.30mb4/2
title: R script for data analyses

description: An R script to estimate transition probabilities by using the naive estimator, nonspatial and spatial model. It also includes codes for estimating and plotting some properties of community dynamics as well as those for drawing estimated local community structure.
DOI: 10.5061/dryad.30mb4/3
title: Model file for the nonspatial model

description: JAGS model file for the nonspatial model.
DOI: 10.5061/dryad.30mb4/4
title: Model file for the spatial model

description: JAGS model file for the spatial model.
DOI: 10.5061/dryad.30mb4/5
title: Parameter estimates

description: This compressed file contains R binary files including estimates of transition probabilities and others, obtained for each quadrat by using the naive estimator, nonspatial and spatial model. They are obtained as outputs from the codes in the "Rscript.R" file.
DOI: 10.5061/dryad.30mb4/6
title: Posterior samples

description: This compressed file contains R binary files including JAGS output (i.e., posterior samples) for each quadrat. They are obtained as outputs from the codes in the "Rscript.R" file, and are also used to produce files contained in the "results.zip" file.
DOI: 10.5061/dryad.412gv/5
title: Chiroptera Data (Mammal Supertree)

description: Chiroptera data on baculum presence.
DOI: 10.5061/dryad.412gv/6
title: Rodentia Data (Mammal Supertree)

description: Rodentia data on baculum presence.
DOI: 10.5061/dryad.4h6v0/1
title: shuai2014
DOI: 10.5061/dryad.52b22/1
title: Spatial and Temporal Floral Phenotypes

description: This data file contains floral phenotypic data for populations sampled in 2012 and 2003. The spatial analysis uses only data from 2012. The 'temporal' label (1) indicates if populations were paired between 2003 and 2012.
DOI: 10.5061/dryad.52b22/2
title: Latitude

description: Latitudes for each population.
DOI: 10.5061/dryad.52b22/3
title: Resistance levels for each population

description: Resistance is defined as the proportion of the population remaining alive post-herbicide application. More information can be found in Kuester et al (2015) Evolutionary Applications.
DOI: 10.5061/dryad.53pn8/1
title: Genotype Data for Ficus hahliana

description: Genotype data for Ficus hahliana, data for 10 microsatellite loci and 49 individuals with missing data coded as -9. The first column lists individuals and the second column lists the elevational site of each individual. Formatted for STRUCTURE.
DOI: 10.5061/dryad.53pn8/2
title: Genotype data for Ficus arfakensis

description: Genotype data for Ficus arfakensis, data for 8 microsatellite loci and 58 individuals with missing data coded as -9. The first column lists individuals and the second column lists the elevational site of each individual. Formatted for STRUCTURE.
DOI: 10.5061/dryad.53pn8/3
title: Genotype Data for Ficus bernaysii and Ficus iodotricha

description: Genotype data for Ficus bernaysii (BER) and Ficus iodotricha (IOD), data for 8 microsatellite loci and four individuals per species with missing data coded as -9. The first column lists individuals and the second column lists the sampling site.
DOI: 10.5061/dryad.53pn8/4
title: Ficus Transect Totals

description: Total abundance across all transects per elevation for a survey of species found growing along the Mount Wilhelm Elevational transect, updated in early 2016. Future taxonomic revisions can be expected, especially for species marked with asterix as these represent undescribed taxa (morpho-species names given).
DOI: 10.5061/dryad.53pn8/5
title: Ficus hahliana Measurements

description: Width and height measurements for Ficus hahliana syconia from six sites along the Mt Wilhelm elevational gradient. Sample refers to the individual tree sampled and site refers to the collection site whilst elevation is given in meters above sea level. Width and height were are given in cm and volume is given in cm3. Tree sex is given where known.
DOI: 10.5061/dryad.5dh98/1
title: polygyny threshold distance data--manning&mcloughin

description: Data are from a study of spatially explicit counts of feral horses and associated distances to nearest permanent freshwater sources on Sable Island, Canada (2008-2013).                                                                                Field LabelsYear=yearBandStallion=dominant maleSex=genderFemaleID=unique female identifierLatitude=latitudeLongitude=longitudeDistH2O_m=distance to nearest permanent freshwater source (meters)
DOI: 10.5061/dryad.5dh98/2
title: Female reproduction across the polygyny threshold

description: Year=yearFemaleDispersion=overdispersed (k&lt;1) or underdispersed (k&gt;1) (see methods)FoalsPerFemale=probability that a female would reproduce in that group of females binned according to distance from water (see methods)
DOI: 10.5061/dryad.5dh98/3
title: Shifts in polygny thresholds and male selection pressure

description: Year=yearNAO_Index=North Atlantic Oscillation Index MeanAdultFemalsPerHarem=mean number of females in the harem (geometric mean across January, February, and March)AdultSexRatio=number of males ≥4 years old/[males ≥4 years old + females ≥2 years old]) from the entire population MeanMaximumSummerTemperature_C=mean of daily maximum summer temperatures (Celsius) from June through August.TotalSummerPrecipitation_CM=total summer precipitation from June through AugustMalePopSegmentUnderCompetition=proportion of the male breeding population residing in the region of the island where females were under-dispersed (k&gt;1)PropOfYearsUnderMaleSelection=proportion of years where females were clustered around particular males (k&gt;1; see methods)PolygynyThresholdDistanceFromPond_KM=distance from permanent water where k=1 during a given year (see methods)
DOI: 10.5061/dryad.62t17/1
title: Data and code

description: Raw data and R code
DOI: 10.5061/dryad.62t17/2
title: random_to_sample_200m_1

description: Random points for interpolation, part 1
DOI: 10.5061/dryad.62t17/3
title: random_to_sample_200m_2

description: Random points for interpolation part 2
DOI: 10.5061/dryad.6983c/1
title: Data from: Incorporating explicit geospatial data shows more species at risk of extinction than the current Red List

description: There are six folders in the zip file, one for each region we covered. Inside each region's folder there are two .tiff files: the first one is a composite of ranges of endemic and threatened birds using their original range map from BirdLifer and Natureserve; the second file is a composite of the same species but after their ranges were refined by elevation and habitat using the methods described in the publication.
DOI: 10.5061/dryad.83s93/3
title: Matlab code used to analyse and visualize the ambient sound data

description: This Matlab code calculates the results and plots the figures presented in the paper. Step-by-step instructions are provided as comments in the code, as well as links to external data sets. The code was developed and tested using Matlab 2015a.
DOI: 10.5061/dryad.9n859/1
title: Data from: Patterns and thresholds of grazing-induced changes in community structure and ecosystem functioning: species-level responses and the critical role of species traits

description: Species abundance, aboveground net primary production (ANPP) and plant functional traits data used in the analyses are included in this file. Species abundance is the number of individuals of each species in each 1m × 1m quadrat. Plant functional traits include specific leaf area, plant height, stem to leaf biomass ratio, and leaf nitrogen content. For each trait, the mean trait value was the average of 30 individuals of each species.
DOI: 10.5061/dryad.9rb13/10
title: Early Miocene dataset

description: Early Miocene dataset used for the R code "Indo-Pac_figs.R".
DOI: 10.5061/dryad.9rb13/2
title: R code for GAMs

description: R code used for the general additive models (GAMs), "Yasuharaetal_JB_code.R".
DOI: 10.5061/dryad.9rb13/3
title: Eocene-Oligocene dataset

description: Eocene-Oligocene dataset used for the R code "Indo-Pac_figs.R".
DOI: 10.5061/dryad.9rb13/4
title: Pliocene-Pleistocene dataset

description: Pliocene-Pleistocene dataset used for the R code "Indo-Pac_figs.R".
DOI: 10.5061/dryad.9rb13/5
title: Modern IAA dataset

description: Modern Indo-Australian Archipelago (IAA) dataset used for the R code "Indo-Pac_figs.R".
DOI: 10.5061/dryad.9rb13/6
title: Late Miocene dataset

description: Late Miocene dataset used for the R code "Indo-Pac_figs.R".
DOI: 10.5061/dryad.9rb13/7
title: NEJP dataset

description: Northeastern Japan (NEJP) dataset used for the R code "Indo-Pac_figs.R".
DOI: 10.5061/dryad.9rb13/8
title: SWJP dataset

description: Southwestern Japan (SWJP) dataset used for the R code "Indo-Pac_figs.R".
DOI: 10.5061/dryad.9rb13/9
title: IAA dataset

description: Indo-Australian Archipelago (IAA) dataset used for the R code "Indo-Pac_figs.R".
DOI: 10.5061/dryad.b997r/1
title: Data_and_SAS_code

description: 1. Raw data for escape behavior of field captured adults to inundation. 2. Raw data for adult escape behavior to inundation following tidal/seasonal treatment of larvae and pupae
DOI: 10.5061/dryad.bq68f/1
title: Environmental distance matrix

description: The environmental distance matrix used in assessing isolation by environment.
DOI: 10.5061/dryad.bq68f/2
title: m16_ConcatenatedLoci

description: Concatenated matrix of loci from the m16 pyRAD analysis
DOI: 10.5061/dryad.bq68f/3
title: m16_PCA_Structure

description: Structure from the m16 pyRAD analysis file used for PCA.
DOI: 10.5061/dryad.bq68f/4
title: m16_SNPs

description: SNPs file from the m16 pyRAD analysis
DOI: 10.5061/dryad.bq68f/5
title: m32_ConcatenatedLoci

description: Concatenated matrix of loci from the m32 pyRAD analysis
DOI: 10.5061/dryad.d1s39/1
title: STEPCAM output

description: The zip file contains the raw STEPCAM output for each transect, 3 replicate runs (with different seeds) per transect. The zip file is organized as follows: each folder (name = fit_transectNo_repl) contains the R files used to run STEPCAM, temporary intermediate output ("particles_temp_t=XX.txt"), a text file tracking the acceptance rate ("accepted_t=XX.txt") and the final posterior distribution (
DOI: 10.5061/dryad.gt57f/4
title: Partition_Variation_3D_v3_focal_host

description: This file contains the Matlab code for the regression-based partition of variation used in the ESM.
DOI: 10.5061/dryad.gt57f/5
title: Pond_Data_3D_focal_hosts

description: These data are used in the Matlab file "Partition_Variation_3D_v3_focal_host.m"
DOI: 10.5061/dryad.gt57f/6
title: Partition_Variation_3D

description: The file contains the Matlab code for the regression-based partition of variance presented in the main text (Figure 6).
DOI: 10.5061/dryad.gt57f/7
title: Pond_Data_3D

description: Date for the Matlab code to generate Figure 6.
DOI: 10.5061/dryad.gt57f/8
title: Pond_Data_3D_newts

description: Data for the regression-based variation partition that substitutes overall host diversity for the frequency of the introduced newt.
DOI: 10.5061/dryad.h77n8/1
title: Appendix S1

description: Femur and tibia lengths and circumferences from flightless birds and non-avian theropods, including references for non-avian theropod data.
DOI: 10.5061/dryad.h77n8/2
title: Appendix S2

description: Matrix representation parsimony codings for flightless avians and non-avian theropods with list of source phylogenies and first and last appearance dates of taxa with data sources listed.
DOI: 10.5061/dryad.h77n8/3
title: Supplementary Figures

description: Photographs of avian leg bones with key features labelled (Fig. S1A and S1B), and time scaled strict consenus trees of flightless birds (Fig. S2) and non-avian theropods (Fig. S3) included in regression analyses.
DOI: 10.5061/dryad.m009s/1
title: All data for the manuscript

description: The attached file is all the raw data for the manuscript which also including the arcsine-transformed proportional data and the average value for each treatment at the replicated population level.
DOI: 10.5061/dryad.m874p/1
title: Sampling locations and environmental data from Jakobshavn Isbræ region of western Greenland

description: Geographic coordinates (UTM readings), pH, water temperature, altitude, depth, area and distance to ice sheet collected in the field and nutrients (Total nitrogen, Total phosphorus and chlorophyll-a) determined in the laboratory from water samples collected during field sampling.
DOI: 10.5061/dryad.m874p/2
title: Clones  and their abuandance  in the habitat detected
DOI: 10.5061/dryad.m874p/4
title: Dryad® Digital Repository

description: This files includes the R packages we used in our analysis. The input data and names of variables are the same as those used in the main text. ENV= environmental variables, SPACE +spatial distance, HAB=Habitat (pond vs lake) and AGE = represented by distance and dummy variables for old and young
DOI: 10.5061/dryad.m874p/5
title: Dryad® Digital Repository-polysat-input-data

description: Column A rows 1-12780 indicate name of individuals and population they belong to followed by numberreferring to population and individual organism's number, respectively. The letter "L" refers to lake habitat and "p" for pond habitat.Column B contains list of 9 microsatellite markers from Colbourne et al. (2004) Molecular Ecology Notes 4, 485-490) and column C through F lists number of alleles for each individual organisms at the respective microsatellite markers.Column G refers to DNA-code used and column H is multi-locus genotype and column I is code of clones used in the main text and supplementary material.
DOI: 10.5061/dryad.q3670/1
title: Marchand_et_al_raw_data_DRYAD
DOI: 10.5061/dryad.qp1nd/1
title: COI data from previous phylogeographical studies
DOI: 10.5061/dryad.sf85s/1
title: Lomax & Massare APPENDIX

description: APPENDIX. Description of characters used in the phylogenetic analysis. Characters are polarized using Temnodontosaurus and Suevoleviathan as outgroups. All characters are unordered. Lengths or widths of skeletal elements are evaluated as ‘approximately equal’ if the measurements are within 10% of each other. Characters that are not referenced were developed as part of this study.
DOI: 10.5061/dryad.sf85s/2
title: Lomax & Massare supplementary material 1

description: SUPPLEMENTARY INFORMATION 1
DOI: 10.5061/dryad.sf85s/3
title: Lomax & Massare supplementary material 2 (matrix)

description: SUPPLEMENTARY INFORMATION 2 - Nexus file
DOI: 10.5061/dryad.sf85s/4
title: Lomax & Massare supplementary material 3

description: SUPPLEMENTARY INFORMATION 3
DOI: 10.5061/dryad.t3d52/1
title: Arnold_etal_2016_functecol_dataset

description: Data from laboratory experiments on that measured many physiological, morphological, and movement behaviour traits in Tribolium castaneum. The morphological traits were measured using ImageJ software from microscope images. Movement behaviour traits were from video recordings that were digitised in MATLAB and then calculated in Microsoft Excel. Other calculations or unit conversions were made either in Microsoft Excel or R 3.2.3. A key with descriptions and units of the measured traits is provided within the data file.
DOI: 10.5061/dryad.vm36c/1
title: Rhesus Macaque TRAV and TRDV genes

description: TRAV and TRDV genes extracted from the rhesus macaque genome. The gene features reported include L-PART1, V-INTRON, V-EXON, V-HEPTAMER, V-SPACER, and V-NONAMER. The FASTA header fields include the species name, rhesus macaque chromosome 7 accession number (NC_007864.1), start and end positions of the gene feature in the rhesus macaque chromosome 7, strand (-1 indicates that the reported sequences are the reverse complement), gene name, and gene feature.
DOI: 10.5061/dryad.vm36c/2
title: Rhesus Macaque TRAJ genes

description: TRAJ genes extracted from the rhesus macaque genome. The gene features reported include J-NONAMER, J-SPACER, and J-HEPTAMER. The FASTA header fields include the species name, rhesus macaque chromosome 7 accession number (NC_007864.1), start and end positions of the gene feature in the rhesus macaque chromosome 7, strand (-1 indicates that the reported sequences are the reverse complement), gene name, and gene feature.
DOI: 10.5061/dryad.00393/1
title: isomura_EMGdata

description: Raw EMG data at each trial for the corrugator supercilli (brow) and the zygomaticus (cheek) in each infant. Data for a trial includes EMG activities from 2 sec before to 1 sec after the stumulus (9 sec) onset, which thus shows the activities for 12 seconds in total.
DOI: 10.5061/dryad.0287v/1
title: Vegetation species by size class

description: Matrix of Vegetation species by size class.
DOI: 10.5061/dryad.0287v/2
title: Habitat plots

description: Habitat plot identification data for vegetation data. Includes nest success and NMDS axis scores
DOI: 10.5061/dryad.10f4p/1
title: Metadata

description: Tabular data. Animal ID, intervention group, time under hypoxia, time to ROSC.
DOI: 10.5061/dryad.10f4p/2
title: NMR-Spectra-002-035

description: 1H NMR spectra in raw Bruker format. Part 1 / 5.
DOI: 10.5061/dryad.16r15/1
title: Raw equid tail hair isotope data

description: The data file contains raw tail hair stable isotope data (CNH) of three sympatric equid species from NW Mongolia. Data were originally used to draw inferences about multi-year diet seasonality, isotopic dietary niches, and physiological adaptations in the Asiatic wild ass (khulan), re-introduced Przewalski’s horse, and domestic horse in the Mongolian part of the Dzungarian Gobi.
DOI: 10.5061/dryad.1k85g/1
title: Experiment 1 data

description: This file contains all measurements and treatments for the first experiment in the study. Final root biomass is calculated by subtracting the weight of rocks from the initial measurement of root biomass. Cultivars a, b, and c, refer to OAC Wallace, OAC Calypso, and OAC Champion respectively. Any missing values refers to plants that died, did not germinate, or plant parts could not be retrieved because of damage.
DOI: 10.5061/dryad.1k85g/2
title: Data experiment 2 responses of wild soybean

description: This file contains measurements and treatments for responses of wild soybean to commercial neighbours. Only data from wild soybean plants was used in the analysis of this data set. Final root biomass is calculated by subtracting the weight of rocks from the initial measurement of root biomass. Cultivars w and c, refer to wild soybean and OAC Wallace respectively. Any missing values refers to plants that died, did not germinate, or plant parts could not be retrieved because of damage.
DOI: 10.5061/dryad.1k85g/3
title: Data experiment 2 responses of commercial soybean

description: This file contains measurements and treatments for responses of commercial soybean to wild soybean neighbours. Only data from commercial soybean plants was used in the analysis of this data set. Final root biomass is calculated by subtracting the weight of rocks from the initial measurement of root biomass. Cultivars w and c, refer to wild soybean and OAC Wallace respectively. Any missing values refers to plants that died, did not germinate, or plant parts could not be retrieved because of damage.
DOI: 10.5061/dryad.1k85g/4
title: Data experiment 3

description: This file contains measurements and treatments for responses of commercial soybean to white bean neighbours. Only data from commercial soybean plants was used in the analysis of this data set. Final root biomass is calculated by subtracting the weight of rocks from the initial measurement of root biomass. Any missing values refers to plants that died, did not germinate, or plant parts could not be retrieved because of damage.
DOI: 10.5061/dryad.1m3s2/1
title: Scornavacca_SuppFig

description: Supplementary figures, Scornavacca & Galtier
DOI: 10.5061/dryad.1m3s2/2
title: Scornavacca_SuppMat

description: Trees in newick format, Scornavacca & Galtier
DOI: 10.5061/dryad.23p42/1
title: Plumage patch level sexual dichromatism

description: Plumage patch level sexual dichromatism data on Australian passerines and parrots.