cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.s6217/7
title: Estimated tree using data from Šimková et al., (2006)

description: Our estimated tree generated using data from Šimková et al., (2006). The tree is based on partial 18S rDNA and the entire nuclear ITS1 gene region for 51 species in the genus Dactylogyrus and two outgroups, Thaparocleidus vistulensis and Clediodiscus pricei. The accession numbers were taken from the Šimková et al., (2004). The tree was estimated using BEAST v2.1.3 (Bouckaert et al., 2014) on the constrained topology from Šimková et al., (2006). We used a GTR + Γ model of nucleotide evolution with separate partitions for each gene, a relaxed log-normal clock, and a birth-death prior. Further information and full references can be found in the supplementary material of our paper.
DOI: 10.5061/dryad.t402g/1
title: openData_new

description: xls files contain percent signal change per run.img/hdr files show tvalues for contrasts see readme.txt for more information
DOI: 10.5061/dryad.05r13/1
title: Staples_et_al_Oikos_data

description: There are five excel sheets in this file, containing all data used for the main analyses in Staples et al. 2016 10.1111/oik.03180.  Meta data for each data sheet is included in the associated README.txt file
DOI: 10.5061/dryad.116j2/1
title: Anderegg_Dryad_MortalityDatabase_v1_3-2016

description: Mortality data from Anderegg et al. 2016 PNAS. See publication for details.
DOI: 10.5061/dryad.340p0/2
title: Hahn_JEcol_survival_DATA

description: Data on plant survival after the first year of the experiment. All data were collected in the field by the authors.
DOI: 10.5061/dryad.340p0/3
title: Hahn_JEcol_flowering_DATA

description: Data on flowering for the plants after the second year of the experiment. All data were collected in the field by the authors.
DOI: 10.5061/dryad.340p0/4
title: Hahn_JEcol_biomass_DATA

description: Data for biomass at the end of the experiment. All data were collected in the field by the authors.
DOI: 10.5061/dryad.340p0/5
title: Hahn_JEcol_herbivory_DATA

description: Data on herbivore damage to the plants at three survey periods throughout the experiment. All data were collected in the field by the authors.
DOI: 10.5061/dryad.37354/1
title: Graignic-EvolAppli-Dryad-2016-04-14-18ssr-360ind-SelectionCutting

description: Data of microsatellite genotypes using 18 ssr for 360 individuals. Each individual is associated with stand code (3 OG: old growth and 3 SC: selection cutting) and cohort (mature, sapling and seedling sugar maple)
DOI: 10.5061/dryad.4nj8t/1
title: data quantitative genetic analyses Nicolaus et al 2016

description: file containing all the data used for the quantitative genetic analyses of exploratory behaviour and tie size of the Lauwersmeer great tit population
DOI: 10.5061/dryad.4nj8t/2
title: phenotypic pedigree Nicolaus et al 2016

description: pedigree file of the Lauwersmeer great tit population
DOI: 10.5061/dryad.4nj8t/3
title: data selection analyses Nicolaus et al 2016

description: file containing the data used for the correlational selection analyses
DOI: 10.5061/dryad.4qd60/3
title: BehavioralSensitivities

description: Behavioral sensitivities to four wave length of light measured by optomotor responses using individual guppies grown under green or orange light environments
DOI: 10.5061/dryad.4qd60/4
title: OpsinExpressionValues

description: Opsin gene expression of guppy individuals grown under green and orange light environments
DOI: 10.5061/dryad.5v8b7/1
title: Baker et al 2016 MEE

description: Contains all the data used in Baker et al 2016 MEE
DOI: 10.5061/dryad.604b8.1
title: Data from: Sequence capture versus restriction site associated DNA sequencing for shallow systematics
DOI: 10.5061/dryad.604b8.2/4.2
title: Raw reads from RAD-Seq with 8 *Xenops minutus* samples

description: Illumina reads from genotyping by sequencing (a RAD-Seqmethod) using the enzyme PstI in 4 *X. minutus* samples from either side of the Andes. Tissue numbers corresponding to those used in the Table S1 and barcodes are provided in the filename for each sample.
DOI: 10.5061/dryad.64p5c/1
title: All grizzly bear occupancy data

description: - This dataset contains all detection-non-detection data for pictures from all grizzly bears. 1 indicates at least one picture; 0 indicates no pictures; NA indicates camera not running.- Each row contains data from one camera site- Each columns contains data from one 4-day sampling replicate  - Names of column corresponds to the number of the first day of each 4-day window
DOI: 10.5061/dryad.64p5c/2
title: Grizzly bear family occupancy data

description: This dataset is similar to all grizzly bear data, but only contains detection-non-detection data for pictures of grizzly bear family groups
DOI: 10.5061/dryad.64p5c/3
title: Grizzly bear occupancy Site Covariates

description: This dataset contains site covariates present in the top occupancy models for both grizzly bear occupancy data sets
DOI: 10.5061/dryad.8n45g/1
title: McFarlane_songrecognition_data
DOI: 10.5061/dryad.c5271/1
title: ITS alignment

description: Nuclear ribosomal ITS aligned matrix
DOI: 10.5061/dryad.c5271/2
title: trnL-F alignment

description: Chloroplast trnL-F aligned matrix
DOI: 10.5061/dryad.d8b93/1
title: Nucleotide diversity in each of the 20 herring populations

description: Nucleotide diversity in each populations was obtained using popoolation, and parameters used could be found in the readme.txt.
DOI: 10.5061/dryad.d8b93/2
title: Fst distribution across the herring genome

description: Fst distribution across the herring genome was obtained with popoolation2m, and parameters used could be found in readme.txt.
DOI: 10.5061/dryad.d8b93/3
title: outlier detection

description: Outlier detection with both empirical and BayeScan tests in both all of the 20 and just 17 Baltic Sea herring populations.
DOI: 10.5061/dryad.dc8dq/1
title: Selz et al. data

description: Raw data
DOI: 10.5061/dryad.fh8hs/1
title: BD_28.04.2016
DOI: 10.5061/dryad.h10jd/1
title: Sex allocation and maternal survival
DOI: 10.5061/dryad.h5f5n/1
title: Data set
DOI: 10.5061/dryad.pr3pr/8
title: Captured Flanking Region Alignments

description: A fasta file of combined aligned sets of captured flanking regions for the four hyperoliid species used for transcriptome sequencing and probe design.  Only markers with all 4 species present were kept, resulting in 1071 flanking markers. Names of markers associated with flanking regions correspond to those used in annotated transcriptomes, orthologous transcript set, and probe set for cross referencing.  The concatenated alignment length of flanking regions is 797,016 base pairs.
DOI: 10.5061/dryad.q82j0/1
title: Matteodo2016_Freq&Cover change

description: Species of the six plant communities and their corresponding frequencies in the historical and recent surveys, the difference between recent and historical frequency, the p-value derived from the permutation test on frequency, the mean cover in the historical and recent surveys, the difference of mean cover (recent-historical), and the significance value derived from the permutation test on cover. The latter test was applied only on species with historical and recent frequency values ≥ 25%. Species are ordered firstly by increasing p-values for the frequency test and secondly by increasing p-values for the cover test. Species with significant frequency or mean cover changes are in bold.
DOI: 10.5061/dryad.r5nf0/1
title: Community_Trees

description: 1. Nexus files from Paramo fly species, containing aligned COI data described in text of manuscript. 2. Results from community tree analysis of Paramo fly COI data.
DOI: 10.5061/dryad.r80tb/1
title: Leafing intensity, fruit size and number in woody angiosperms

description: Leafing intensity, mean individual leaf mass, mean fruit cluster mass and fruiting intensity, as well as mean height and circumference for 46 woody species in the southeastern Ontario region.
DOI: 10.5061/dryad.rm068/1
title: Species Composition Data

description: This file contains presence/absence data of 233 plant species in 23 recovering calcareous grasslands (‘Sites’) in southern Germany. Species are in columns, rows indicate presence [1] or absence [0] of a species in a grassland.
DOI: 10.5061/dryad.rm068/2
title: Plot Environmental Data

description: This file contains soil variables measured in 161 vegetation sampling plots located in 23 recovering calcareous grasslands (‘Sites’) in southern Germany. Each row represents a grassland. See associated ReadME file for variable description and measurement units.
DOI: 10.5061/dryad.rm068/3
title: Grassland Spatial Descriptors

description: This file contains 9 variables describing the age and spatial landscape context of 23 recovering calcareous grasslands (‘Sites’) in southern Germany. See associated ReadME file for variable description and measurement units.
DOI: 10.5061/dryad.rm068/4
title: Habitat Specialist Classification

description: This file contains information on the habitat specialism of all species in the associated file ‘grass_species.txt’. Column ‘Specialist’ is a binary variable where 1 = habitat specialist, and 0 = non-specialist.
DOI: 10.5061/dryad.rt0t0/1
title: Footprint and kinematic data from human experiments

description: This file includes a non-identifiable version of the human experimental data set. This includes measurements of footprint topographies from each experimental trial, along with corresponding biomechanical data from those same trials.
DOI: 10.5061/dryad.rt0t0/2
title: Footprint data from chimpanzee experiments

description: This file contains non-identifiable data from the chimpanzee footprint experiments. This includes normalized measurements of the topographies of the footprints created in each experimental trial.
DOI: 10.5061/dryad.rt0t0/3
title: Footprint data from Laetoli

description: This file contains measurements of footprint topography from the set of Laetoli footprints that were analyzed in this study.
DOI: 10.5061/dryad.rt0t0/4
title: Sample human and chimpanzee track models

description: Sample 3-dimensional models of experimentally-produced human and chimpanzee tracks.
DOI: 10.5061/dryad.s6217/8
title: Estimated tree using data from Tripp & Manos (2008)

description: Our estimated tree generated using data from Tripp & Manos (2008). The tree is based on the nuclear ribosomal ITS + 5.8S region and the chloroplast trnG-trnR region for 115 species in the genus Ruellia and one outgroup, Sanchezia speciosa. We obtained the alignment of these genes from TreeBASE under study ID S1995. The tree was estimated using BEAST v2.1.3 (Bouckaert et al., 2014) on the constrained topology from Tripp & Manos (2008). We used a GTR + Γ model of nucleotide evolution with separate partitions for each gene and codon position, a relaxed log-normal clock, and a birth-death prior. Further information and full references can be found in the supplementary material of our paper.
DOI: 10.5061/dryad.s6217/9
title: Estimated tree using data from Stireman (2005)

description: Our estimated tree generated using data from Stireman (2005). The tree is based on EF-1α and 28S rRNA genes for for 49 species of Tachinid flies in the subfamily Exoristinae and one outgroup, Metoposarcophaga sp. The accession numbers were taken from the Stireman (2002). The tree was estimated using BEAST v2.1.3 (Bouckaert et al., 2014) on the constrained topology from Stireman (2005). We used a GTR + Γ model of nucleotide evolution with separate partitions for each gene and codon position, a relaxed log-normal clock, and a birth-death prior. Further information and full references can be found in the supplementary material of our paper.
DOI: 10.5061/dryad.vt45p/1
title: Phoradendron californicum microsatellite data

description: Microsatellite genotypes for Phoradendron californicum individuals collected from the field in Southern Arizona. Each row represents a unique P. californicum individual. Each individual has a site (location from which the mistletoe was collected), Host.Spp (full species name of the host on which it was collected), Latitude, Longitude, and peak calls of allele sizes for each of ten diploid loci. SRER= Santa Rita Experimental Range, CRP= Catalina Regional Park, TH=Tumamoc Hill
DOI: 10.5061/dryad.vt45p/2
title: Pcalifornicum Structure Input file

description: Input file for analysis of microsatellites in Structure. ReadMe file provides Structure parameters used in the analysis.
DOI: 10.5061/dryad.vt45p/3
title: Flowering phenology associated with Structure ancestry

description: Structure ancestry results and day of first flowering. Each row represents a unique P. californicum individual. Each individual has a "MesAnc" (proportion of ancestry estimated to be from mesquite-associated cluster), "Host" (whether sampled from Acacia or Mesquite), and "DayofYear" (day of the year of first recorded flowering).
DOI: 10.5281/zenodo.32469
title: Anthropoid morphometric and phylogenetic data, with R code.

description: This repository contains three files: 1) a NEXUS phylogeny of 100 anthropoid primates; 2) a CSV text file of anthropoid lower molar areas; and, 3) an R script containing replication code for fitting Bayesian phylogenetic generalized linear mixed models to the anthropoid data. These files are associated with the paper "The Evolution of Anthropoid Molar Proportions" in BMC Evolutionary Biology (2016).
DOI: 10.5061/dryad.2q8p6/1
title: 28SrDNA_Alignment
DOI: 10.5061/dryad.2q8p6/2
title: COI_Alignment
DOI: 10.5061/dryad.2q8p6/3
title: Microsatellite_data
DOI: 10.5061/dryad.2q8p6/4
title: Microsatellite_primers
DOI: 10.5061/dryad.4gk4f/1
title: Sitalcina_FinalPhased_forDryad

description: Phylogenetic matrices, phased data, nexus format
DOI: 10.5061/dryad.4k275/1
title: Ice-crossing locations

description: The GPS locations (n = 653) of migratory caribou from the Rivière-aux-Feuilles herd that crossed lakes on ice from 2007 to 2014 in northern Quebec.
DOI: 10.5061/dryad.4k275/2
title: Water-crossing locations

description: The GPS locations (n = 139) of migratory caribou from the Rivière-aux-Feuilles herd that crossed lakes through water from 2007 to 2014 in northern Quebec.
DOI: 10.5061/dryad.4k275/3
title: Detour locations

description: The GPS locations (n = 1119) of migratory caribou from the Rivière-aux-Feuilles herd that circumvented lakes from 2007 to 2014 in northern Quebec.
DOI: 10.5061/dryad.4r383/1
title: Reid_Parent-Offspring_Kinship_Data

description: Data for "Variation in parent-offspring kinship in socially monogamous systems with extra-pair reproduction and inbreeding"
DOI: 10.5061/dryad.74458/1
title: nuclear microsatellite genotypes of Baetis alpinus and Baetis melanonyx

description: nuclear data (10 microsatellites) of Baetis alpinus and Baetis melanonyx populations sampled in the central Alps (Switzerland).
DOI: 10.5061/dryad.7ng0h/1
title: Datasets on marking encounter history, mating and mobility

description: The file contains 6 datasets (3 for forewings and 3 for hindwings). The "Marking" datasets contain the encounter history for each individual during the mark-recapture study, and the associated individual values of centroid size and the first three PC's of wing shape. These covariates are z-standardized. The "Matings" datasets contain the mating success of each individual (1 for mating, 0 for non-mating), as well as the associated individual values of centroid size and the first three PC's of wing shape. The values are z-standardized. Finally, the "Mobility" datasets include the individual values of centroid size, maximum flight distance, mobility rate, and the first three PC's of wing shape.
DOI: 10.5061/dryad.c5271/10
title: Materials and Methods for phylogenetic analyses

description: Descriptions for all phylogenetic  analyses conducted in this study
DOI: 10.5061/dryad.c5271/3
title: trnH-psbA alignment

description: Chloroplast trnH-psbA intergenic spacer aligned matrix
DOI: 10.5061/dryad.c5271/4
title: rps16 intron alignment

description: chloroplast rps16 intron aligned matrix
DOI: 10.5061/dryad.c5271/5
title: BEAST species tree analyses

description: xml file for species tree analyses in BEAST v2.3.0 under the coalescent-based method implemented in *BEAST extension, using ribosomal ITS and three chloroplast DNA regions(trnL-F, trnH-psbA, rps16 intron),  uncorrelated lognormal relaxed clock models, and two secondary calibrations under normal prior distributions.
DOI: 10.5061/dryad.c5271/6
title: MCCT from species tree analyses

description: Maximum clade credibility species tree (MCCT) estimated in BEAST v2.3.0 from nuclear ribosomal ITS  and three chloroplast DNA regions(trnL-F, trnH-psbA, rps16 intron) using the multispecies coalescent method implemented in *BEAST, uncorrelated lognormal relaxed clock models, and two secondary calibrations under normal prior distributions.
DOI: 10.5061/dryad.c5271/7
title: 1000 trees from species tree analyses

description: 1000 randomly subsampled posterior trees from the Bayesian species tree analyses in BEAST v2.3.0 using ribosomal ITS and three chloroplast DNA regions(trnL-F, trnH-psbA, rps16 intron),  the multispecies coalescent method implemented in *BEAST, uncorrelated lognormal relaxed clock models, and two secondary calibrations under normal prior distributions.
DOI: 10.5061/dryad.c5271/8
title: BEAST concatenated analyses

description: xml file for concatenated analyses in BEAST v2.3.0 under the concatenated  method implemented in BEAST, using nuclear ribosomal ITS  and three chloroplast DNA regions (trnL-F, trnH-psbA, rps16 intron), uncorrelated lognormal relaxed clock models, and two secondary calibrations under normal prior distributions.
DOI: 10.5061/dryad.d4600/1
title: Skrip_et_al-JEB-zebra_finch_data

description: This file contains data used to perform statistical analyses: circulating oxidative damage data from adult zebra finches for repeated measures ANOVA; circulating antioxidant capacity data from zebra finches for repeated measures ANOVA; liver antioxidant enzyme data from adult zebra finches for ANOVA; yolk antioxidant and egg size data from zebra finch eggs for mixed general linear models.
DOI: 10.5061/dryad.d8b93/4
title: Genetic differentiation associated with environmental parameters

description: Detecting association between Genetic differentiation and environmental parameters with Bayenv.
DOI: 10.5061/dryad.d8b93/5
title: Environmental files

description: Environmental files used in Bayenv analysis.
DOI: 10.5061/dryad.d8b93/6
title: Genetic distance metrices used for PCoA
DOI: 10.5061/dryad.d8b93/7
title: Genetic and geographic distance metrices used for IBD
DOI: 10.5061/dryad.d8b93/8
title: reference sequences and SNP annotation
DOI: 10.5061/dryad.g8n25/1
title: Tarball of fasta files from study

description: Tarball contains fastas of 4 species alignments from study
DOI: 10.5061/dryad.gc735/1
title: OIK-03810 Dryad Files

description: All data used in the Manuscript as pure csv files, all with description and associated figure/table number.
DOI: 10.5061/dryad.gh730/1
title: Network Edgelist

description: This file is an edgelist of all social interactions that occurred during our experiment.  We have also calculated the simple ratio index using these interactions and that is included here.  The two letter codes are individuals.
DOI: 10.5061/dryad.gh730/2
title: Network_Positions_Observed

description: This file contains the observed network values for each individual in each period.  The data refer to their treatment (C = undisturbed, T = disturbed), Period 1 = time 1 and 2 = time 2.  The tub column refers to the population the individuals were placed in. Elytra is in millimeters and represents the measurement from the caudal end of the elytra to the scutellum.  All network metrics were calculated using the R package t-net with strength assigned an alpha of 0.5.
DOI: 10.5061/dryad.h0649.1
title: Data from: Identifying targets of selection in mosaic genomes with machine learning: applications in Anopheles gambiae for detecting sites within locally adapted chromosomal inversions
DOI: 10.5061/dryad.h0649.2
title: Data from: Identifying targets of selection in mosaic genomes with machine learning: applications in Anopheles gambiae for detecting sites within locally adapted chromosomal inversions
DOI: 10.5061/dryad.h0649.2/1.2
title: msms_runningSettings

description: bootstrap ranges of parameters for 2La, 2Rb regions and msms simulation settings file
DOI: 10.5061/dryad.h0649.2/2.2
title: All individuals vcf

description: VCF file of SNPs of all individuals.
DOI: 10.5061/dryad.h0649.2/3.2
title: Sampling Info

description: Sampling location, species, karyotypes of allspecimens.
DOI: 10.5061/dryad.h0649.2/4.2
title: fastsimcoal_settings

description: fastsimcoal2 input files of different scenarios.
DOI: 10.5061/dryad.h0649.2/5.2
title: Inversion_DAPCRegion_stats

description: Region statistics of 2La and 2Rb and posterior probability of predicted scenarios.
DOI: 10.5061/dryad.j3s5f/1
title: Quercus robur tree genotypes.

description: Genotypes and geographic coordinates for adult Quercus robur trees (n = 135) growing in a 20 km long valley and 684 acorns from 72 mother trees at 20 microsatellite loci. Samples come form 10 distinct oak populations.
DOI: 10.5061/dryad.j3s5f/2
title: Phenological data for Quercus oak trees.

description: Data on flowering phenology for oak individual trees in 10 populations for two study years.
DOI: 10.5061/dryad.j6s47/1
title: Lesser black-backed gull gps tracks with behaviour and weather data

description: This dataset contains gps tracking and accelerometer data of 18 adult lesser black-backed gulls on Texel (the Netherlands) during their breeding season, using UvA-BiTS tags [1]. The gps data is enriched with with behaviour and weather data.The behaviour has been predicted by a classification model using accelerometer data (the approach is detailed in [2]). The weather data is derived from the ERA-Interim dataset [3] by interpolating towards the gps-points. The data fall in the time-window May 15 00:00:00 until June 15 00:00:00 of the years 2012, 2013 and 2014 (i.e. within the breeding season for this population). The data have a resolution of 5 minutes, but data coverage over the time-window is incomplete (the set does not contain a record at every 5-minute interval over the time-window) because at some instances either accelerometer or weather data were not available.The data set comprises a collection of five different file types:1. gps data (gps.zip);2. accelerometer data (acc.zip);3. expert labelled accelerometer data (ela.zip);4. morphometric details of the individual birds (mor.csv);5. photos to illustrate the attachment of the UvA-BiTS tags on the birds, as well as the direction of the 3 accelerometer-axes relative to the orientation of the tags (photos.pdf).File types 1 to 4 are simple rectangular tables, stored in a comma-separated value (csv) format, starting with a header row. In a readme file (text-file, markdown formatted) additional information is given and the contents of the different file types are explained. For an easy transfer gps.zip, acc.zip, ela.zip, mor.csv and photos.pdf are combined into a sinlge file: gab.zip.
DOI: 10.5061/dryad.n2g31/1
title: The unigenes of the Tetrix japoncia assembly

description: "TjA-Unigene.fa" represents all the unigenes of the adult samples from Tetrix japonica."TjL-Unigene.fa" represents all the unigenes of the larval samples from T.japonica."TjATjL-Unigene.fa" represents allthe unigenes of the merged assembly of adult and larval samples from T.japoncia.
DOI: 10.5061/dryad.n2g31/2
title: TjA-Unigene
DOI: 10.5061/dryad.n2g31/3
title: The unigenes of the larval samples from Tetrix japonica
DOI: 10.5061/dryad.n2g31/4
title: Allthe unigenes of the merged assembly of adult and larval samples from Tetrix japonica.
DOI: 10.5061/dryad.nm0vn/1
title: Life history and morphological traits of starlings
DOI: 10.5061/dryad.r4847/1
title: Rallus limicola summer species distribution model

description: Median Maxent species distribution model for summer Rallus limicola range. Calculated from 10 bootstrapped replicates. SDM was corrected for spatial sampling bias using the bias grid method.