cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.985s5/1
title: Environmental data for Blue Mountains region

description: RData file with environmental and soil covariates at 100m resolution for locations within the Greater Blue Mountains World Heritage Area. See ReadMe.txt file for a description of these covariates.
DOI: 10.5061/dryad.9bf7f/1
title: gps_collection_locations

description: The spatial locations of soil samples.
DOI: 10.5061/dryad.c4817/1
title: Weidner et al 2015 data

description: Summary of all data assessed, which was analysed and discussed in the article, and coding of the different treatments, sampling times,etc. For details see comments added to the fields of the variables in the excel file. These descriptions are also given in the readme file.
DOI: 10.5061/dryad.g2066/1
title: Data from Figures 1-5 of the main text

description: Data from Figures 1-5 of the main text, fitness across all 10000 generations of training.
DOI: 10.5061/dryad.g2066/2
title: Data from figure 7 of the main text

description: Data from figure 7 of the main text
DOI: 10.5061/dryad.g2066/3
title: Model code used to produce data in Figs 1 and 2 of the main text

description: Model code (Matlab) used to produce data in Figs 1 and 2 of the main text. The 20 subfolders correspond to the 20 reps in each figure. Simulations start at the 'run all' file. Folders also contain files unrelated to the simulation and used for other analyses.
DOI: 10.5061/dryad.j3127/1
title: Salmo trutta genotypes

description: Genotypes for 15 populations (641 individuals - full-sibs removed) at 23 microsatellite loci in Genalex format
DOI: 10.5061/dryad.km109/24
title: Ottoia prolifica - SEMs of Small Carbonaceous Fossils

description: Ottoia prolifica from the Lower Walcott Quarry.   Zipped archive containing the following high-resolution images:  Hook.pngIntrovert hook - lateral.pngScalid.pngTail hook.pngType B tooth - inner_a.pngType B tooth - inner_b.pngType B tooth - inner_c.pngType B tooth - inner_d.pngType B tooth - inner_e.pngType B tooth - outer_a.pngType B tooth - outer_b.pngType D tooth.pngLow-resolution thumbnails of the included files are available in the associated README.pdf
DOI: 10.5061/dryad.km109/29
title: Fieldia lanceolata

description: Fieldia lanceolata from the Walcott Quarry.   Zipped archive containing the following high-resolution images:  Fieldia lanceolata ROM 63137B nonpolarized.JPGFieldia lanceolata ROM 63137B polarized.JPGFieldia lanceolata ROM 63137B scale.JPGFieldia lanceolata ROM 63138A nonpolarized.JPGFieldia lanceolata ROM 63138A polarized.JPGFieldia lanceolata ROM 63138A scale.JPGFieldia lanceolata NMNH 198599 BSE.tifFieldia lanceolata NMNH 198600 BSE.tifFieldia lanceolata NMNH 198601 BSE.tifFieldia lanceolata NMNH 198601 VPSE.tifFieldia lanceolata NMNH 198604 BSE a.tifFieldia lanceolata NMNH 198604 BSE b.tifFieldia lanceolata NMNH 198604 BSE c.tifFieldia lanceolata NMNH 198604 polarized.jpegFieldia lanceolata NMNH 198615A BSE a.tifFieldia lanceolata NMNH 198615A BSE b.tifFieldia lanceolata NMNH 198615A BSE c.tifFieldia lanceolata NMNH 198615A VPSE.tifFieldia lanceolata NMNH 198695b BSE.tifFieldia lanceolata NMNH 83939c nonpolarized.tiffFieldia lanceolata NMNH 83939c part-polarized.tiffFieldia lanceolata NMNH 83939c polarized.tiff Low-resolution thumbnails of the included files are available in the associated README.pdf
DOI: 10.5061/dryad.km109/30
title: Ancalagon minor

description: Ancalagon minor from the Walcott Quarry.   Zipped archive containing the following high-resolution images:  Ancalagon minor NMNH 188622 anterior BSE.tifAncalagon minor NMNH 188622 anterior VPSE.tifAncalagon minor NMNH 198609 anterior VPSE.tifAncalagon minor NMNH 198610a anterior tip VPSE.tifAncalagon minor NMNH 198610a anterior VPSE.tifAncalagon minor NMNH 198610a lateral VPSE.tifAncalagon minor NMNH 57646 (holotype) anterior a.tifAncalagon minor NMNH 57646 (holotype) anterior b.tifAncalagon minor NMNH 57646 (holotype) complete.tifAncalagon minor NMNH 57646 (holotype) posterior.tif Low-resolution thumbnails of the included files are available in the associated README.pdf
DOI: 10.5061/dryad.km109/31
title: NMNH 198579 - Ottoia prolifica

description: Optical micrograph of Ottoia prolifica NMNH 198579, showing Type A–B teeth.  Low-resolution preview available in the associated README.pdf.
DOI: 10.5061/dryad.km109/32
title: Selkirkia - SEMs of Small Carbonaceous Fossils

description: Small Carbonaceous Fossils from the Pika Formation assigned to Selkirkia.   Zipped archive containing the following high-resolution images:  Selkirkia - Type A tooth.tifSelkirkia - Type B tooth_a.tifSelkirkia - Type B tooth_b.tifSelkirkia - Type B tooth_c.tif Low-resolution thumbnails of the included files are available in the associated README.pdf
DOI: 10.5061/dryad.m41f1/1
title: Leaf and flammability traits (individual leaves)

description: This data set contains the leaf traits and flammability parameters as measured on individual leaves. The first sheet displays the MEAN values per species, which were mainly used for the publication. The second sheet holds the RAW data and the third sheet holds the species list. Abbreviations are explained in the overview.
DOI: 10.5061/dryad.p1k7k/1
title: Microsatellite data Myodes glareolus

description: This table contains the genotypes of Myodes glareolus samples based on 17 microsatellite loci. The first row contains the name of the 17 microsatellite loci. The first column contains the name of the sample, and the following columns contain the length of the alleles for each locus.
DOI: 10.5061/dryad.p1k7k/2
title: Geographical coordinates of the sampling sites

description: This file contains the geographic coordinates of the trapping site of each Myodes glareolus sample. The first column contains the name of the sample and the second column contains the geographic coordinates.
DOI: 10.5061/dryad.p25m0/1
title: Raw data for accumulation curves_Dryad
DOI: 10.5061/dryad.p25m0/2
title: Datasets included in Supplementary Tables_Dryad
DOI: 10.5061/dryad.pd730/1
title: Mommer et al 2015 FE - Minirhizotron data from biodiversity experiment

description: Data on root standing biomass and total root length of four grassland species growing in monocultures and 4 species mixtures in the Nijmegen Phytotron. From minirhizotron images over three years we calculated root length production and root length loss for these plant communities.
DOI: 10.5061/dryad.q7k8j/1
title: R script for statistical analyses and associated input files

description: This compressed file contains an annotated R script for all statistical analyses described in the publication (including linear models, heritability estimation, Fis analysis and associated figures) and associated input files in csv format. Input files listing coral growth and survival were derived from raw photographs which are also included in this archive submission.
DOI: 10.5061/dryad.q7k8j/2
title: Coral Recruits on Tiles: 25 April 2012

description: This file contains post-rearing period photographs of coral recruits by tile. Raw photographs are in .jpg format named by family (1-50). The associated .tif images show how recruit area was obtained and indicate which treatment (C:control, H:Heat) the tile was subsequently assigned to. The .xls data files contain the raw area measures that were subsequently combined to calculate change in recruit growth in the .csv data file contained in the R statistical file.
DOI: 10.5061/dryad.q7k8j/3
title: Coral Recruits on Tiles: 28 May 2012

description: This file contains initial photographs of coral recruits by tile. Raw photographs are in .jpg format named by family (1-50). The associated .tif images show how recruit area was obtained and indicate which treatment (C:control, H:Heat) the tile was subsequently assigned to. The .xls data files contain the raw area measures that were subsequently combined to calculate change in recruit growth in the .csv data file contained in the R statistical file.
DOI: 10.5061/dryad.q7k8j/4
title: Coral Recruits on Tiles: 13 June 2012

description: This file contains final photographs of coral recruits by tile. Raw photographs are in .jpg format named by family (1-50). The associated .tif images show how recruit area was obtained and indicate which treatment (C:control, H:Heat) and experimental tank the tile was assigned to. The .xls data files contain the raw area measures that were subsequently combined to calculate change in recruit growth in the .csv data file contained in the R statistical file.
DOI: 10.5061/dryad.rh460/2
title: Veen-FE2014-00722_litter mass loss

description: Litter mass loss of each litter transplant.
DOI: 10.5061/dryad.rv08g/1
title: Script.Erysimum.species.traits

description: R codes and raw data
DOI: 10.5061/dryad.s7622/1
title: Littoral zooplankton diversity in aquatic feeding mesocosm experiment

description: Data were collected from mesocosms that were placed in a shallow bay in the Baltic Sea. 16-day controlled feeding experiments were conducted using a fish predator (either roach or three-spined stickleback) during the spring and summer period separately. These data show zooplankton group densities (ind L-1).
DOI: 10.5061/dryad.t4t1q/1
title: Springtails measured traits

description: Collected data on offspring from field collected spingtails, at two temperatures. Column headings: familie = family of sibs from same egg batch, location = origin of original population, either Kampina nature reserve (k) or Hilversumse heide nature reserve (h), ecotype = forest (f) or heath (h), temp = temperature at which eggs were placed (12 or 22 C), time = age at maturity in days, sex = sex of individual (m= male or f= female), mass = mass at maturity in ug, rate = growth rate ug/days, lnmass/lnrate/lntime = natural logarithm of the traits mass, rate and time as used in random regression model.
DOI: 10.5061/dryad.t4t1q/2
title: fecundity

description: fecundity of female springtails measured as number of eggs in first egg batch. Column headings: familie = family of sibs from same egg batch, location = origin of original population, either Kampina nature reserve (k) or Hilversumse heide nature reserve (h), ecotype = forest (f) or heath (h), temp = temperature at which mother developed (12 or 22 C), eggnumber = number of eggs in first laid batch, mass_mother = mass of the mother when first egg batch was produced, lnmass_mother = natural logarithm of mass_mother used in linear mixed model.
DOI: 10.5061/dryad.t4t1q/3
title: eggvolume

description: eggvolume of eggs used to set up experiment. Column headings: familie = family of sibs from same egg batch, location = origin of original population, either Kampina nature reserve (k) or Hilversumse heide nature reserve (h), ecotype = forest (f) or heath (h), volmm3 = volume of egg in mm3.
DOI: 10.5061/dryad.165r8/1
title: MAPbox

description: This package "MAPbox.rar" contains all raw data and reconstruction code (in MATLAB) that is needed to reconstruct the T1 maps of the phantom & volunteer study of the Manuscript "Model-Based Acceleration of Look-Locker T1 Mapping" which is to be published in PLOS ONE in 2015.If you only need the reconstructed data, please additionally download "MAPrecon.rar".
DOI: 10.5061/dryad.165r8/2
title: MAPrecon

description: This package "MAPrecon.rar" is an addition to the package "MAPbox.rar". In case you don't want to do any reconstructions yourself and only want to perform the data analysis using already reconstructed data, additionally download this file and follow the instructions in "readme2.txt".
DOI: 10.5061/dryad.1bk06/2
title: Spinal Cord

description: spinal cord AR and ER expression
DOI: 10.5061/dryad.1bk06/3
title: Gonad

description: gonad AR expression
DOI: 10.5061/dryad.1bk06/4
title: Species Means

description: average species AR and ER expression
DOI: 10.5061/dryad.1m4gc/1
title: DataForMainAnalysisSchroederetal.2015PNAS

description: DataForMainAnalysisSchroederetal.2015PNAS.txtThis file contains data on lifetime reproductive success of Lundy island house sparrows, and the age of their parents when the birds were born.
DOI: 10.5061/dryad.1m4gc/2
title: ScriptForMainAnalysisSchroederetal.2015PNAS

description: R script of the main analysis
DOI: 10.5061/dryad.2c20k/1
title: ABC_parameters_ref_table

description: The attached tar zip contains our ABC reference tables, the parameter files for creating simulations, a power analysis script, and summary statistics calculated on the observed Bombus samples.  See the Readme file for details.
DOI: 10.5061/dryad.2qf0t/1
title: Experiment1

description: Fasta files of amplicon reads from Experiment 1 for both the GS Junior and Ion Torrent. All fasta files are non-dereplicated and have been separated into sample batches based on MID (index) tags and all primers have been removed. No further quality or abundance filtering has been performed on the fasta file.
DOI: 10.5061/dryad.2qf0t/2
title: Experiment2

description: Fasta files of amplicon reads from Experiment 2 for both the MiSeq and Ion Torrent. All fasta files are non-dereplicated and have been separated into sample batches based on MID (index) tags and all primers have been removed. No further quality or abundance filtering has been performed on the fasta file.
DOI: 10.5061/dryad.3450r/10
title: Hawkmoth.202tx.MrBayes.tre

description: Bayesian tree from the MrBayes analysis of the 6 concatenated gene dataset. Synonymous and non-synonymous changes for all codon positions included (nt123).
DOI: 10.5061/dryad.3450r/3
title: Hawkmoth.202tx.xml

description: XML input file for the BEAST analysis.
DOI: 10.5061/dryad.3450r/4
title: r8s.commandfile.nex

description: Command file for the r8s analysis.
DOI: 10.5061/dryad.3450r/5
title: r8s.tre

description: Output tree file from the r8s analysis. This tree was used for the BEAST analysis.
DOI: 10.5061/dryad.3450r/6
title: RAxML.constraint.tre

description: Topological constraint, based on published transcriptomic analyses, applied to several analyses in the current study.
DOI: 10.5061/dryad.3450r/7
title: Hawkmoth.202tx.RAxML.ML.nt123.tre

description: ML tree from RAxML analysis of the 6 concatenated gene dataset. Synonymous and non-synonymous changes for all codon positions included (nt123). Taxon names reflect the accepted taxonomic names when the paper was published.
DOI: 10.5061/dryad.3450r/8
title: Hawkmoth.202tx.RAxML.ML.degen1.tre

description: ML tree from RAxML analysis of the concatenated dataset using degeneracy coding (degen1, removing synonymous changes).
DOI: 10.5061/dryad.3450r/9
title: Hawkmoth.202tx.fullnames.nex

description: Nexus sequence dataset file for the 6 concatenated genes with charset block and MrBayes model specifications. Taxon names reflect the accepted taxonomic names when the paper was published.
DOI: 10.5061/dryad.44b4j/2
title: Online Appendix 1 Specimens

description: A detailed list of specimens and GenBank Accession Numbers.
DOI: 10.5061/dryad.44b4j/3
title: Online Appendix 2 Partitions

description: Partitions selected by PartitionFinder.
DOI: 10.5061/dryad.44b4j/4
title: Online Appendix 3 BEAST
DOI: 10.5061/dryad.44b4j/5
title: Online Appendix 4 starBEAST
DOI: 10.5061/dryad.44b4j/6
title: Supplementary Information

description: Supplementary data (Tables and Figures) for Kozak et al. 2015.
DOI: 10.5061/dryad.53686/1
title: Maylandia_13usats_GENEPOP_Mol_Ecol

description: Genepop file containing data from 13 microsatellites for three temporal samples (1996, 2010, 2012) of three populations of Maylandia zebra (Mazinzi Reef, Harbor Island, Illala Gap) and Maylandia benetos (Mazinzi Reef)
DOI: 10.5061/dryad.53686/2
title: Maylandia_DLoop_alignment_Mol_Ecol

description: Alignment (Geneious) of 695 bp of the mitochondrial DLoop for 317 individuals sampled at three points in time (1996, 2010, 2012) from three populations of Maylandia zebra (Mazinzi Reef, Harbour Island, Illala Gap) and Maylandia benetos (Mazinzi Reef).
DOI: 10.5061/dryad.53686/3
title: Maylandia_DLoop_dated_tree_Mol_Ecol

description: Dated phylogenetic tree for 317 individuals of Maylandia zebra and Maylandia benetos generated with BEAST v.1.7.4. We used the HKY + I model and a substitution rate of 0.0324. The simplest coalescent model (constant size) was used. The best clock model was estimated by running all four available clock models and using Tracer to determine the best model for our data set. All analyses were run for 100 million generations sampling every 10,000 generations for a total of 10,000 samples. Convergence of the run was confirmed with Tracer by checking the highest effective sample size (ESS). The exponential relaxed clock had the best likelihood scores (-1371.613, second best: lognormal relaxed clock -1381.808) and was therefore chosen as best clock model. The tree was summarized with TreeAnnotator v.1.7.4.
DOI: 10.5061/dryad.66hc0/15
title: Maximum Likelihood tree of the combined plastid dataset
DOI: 10.5061/dryad.66hc0/16
title: Maximum Parsimony strict consensus tree of the combined plastid dataset
DOI: 10.5061/dryad.66hc0/17
title: Maximum Parsimony bootstrapping trees of the combined plastid dataset
DOI: 10.5061/dryad.66hc0/18
title: Maximum Parsimony most-parsimonious trees of the combined plastid dataset
DOI: 10.5061/dryad.66hc0/19
title: Bayesian tree of the nuclear Xdh dataset
DOI: 10.5061/dryad.66hc0/20
title: Maximum Likelihood tree of the nuclear Xdh dataset
DOI: 10.5061/dryad.66hc0/21
title: Maximum Parsimony strict consensus tree of the nuclear Xdh dataset
DOI: 10.5061/dryad.66hc0/22
title: Maximum Parsimony bootstrapping trees of the nuclear Xdh dataset
DOI: 10.5061/dryad.66hc0/23
title: Maximum Parsimony most-parsimonious trees of the nuclear Xdh dataset
DOI: 10.5061/dryad.6s7p8/1
title: Hiller_et_al_Rhizocephala_NEXUS.nex

description: Nexus file with 18S rDNA sequences
DOI: 10.5061/dryad.6s7p8/2
title: Hiller_et_al_Rhizocephala_BayesTree.con

description: Bayesian tree obtained using the Nexus file also submitted
DOI: 10.5061/dryad.72f4s/1
title: WT dose-response

description: The dose-response for wild type Bacillus thuringiensis in two experiments, presented in Fig. 2 of the main text. Shown are the dead and live insect counts for a range of inoculum sizes in each of the experiments.
DOI: 10.5061/dryad.72f4s/2
title: Fixed toxins dose-response

description: The dose-responses for varying quantities of spores of Bacillus thuringiensis a Cry null strain supplemented with 60 pg of toxin 180 pg of toxin (corresponding to Fig. 1A).
DOI: 10.5061/dryad.72f4s/3
title: Fixed spores dose-response

description: The dose-response for 900 Bacillus thuringiensis spores supplemented with varying quantities of toxins in two experiments. (Corresponding to Fig. 1B).
DOI: 10.5061/dryad.733s9/1
title: Simulation programs for Gst, Hs and correlations

description: This zipped file contains two simulation programs (source code in Fortran 90/95, and Windows executables), user's guides and example input files. The programs can be used to simulate genotype data under different migration and mutation models, and to calculate Gst, Hs, and their correlation from the simulated genotype data.
DOI: 10.5061/dryad.733s9/2
title: Seven empirical datasets for Gst and Hs correlation analysis

description: This zipped file contains seven published microsatellite and SNP datasets used in CoDiDi analysis
DOI: 10.5061/dryad.9bf7f/2
title: soil_nut_xwalked

description: Soil nutrient data for collected soil samples (see meta-data).
DOI: 10.5061/dryad.9bf7f/3
title: NewickTree

description: Plant phylogeny (see meta-data).
DOI: 10.5061/dryad.9bf7f/4
title: Fun_AVE_Live.data_matrix

description: Fungal community data matrix (see meta-data).
DOI: 10.5061/dryad.9bf7f/5
title: Bact_AVE_Live.data_matrix

description: Bacterial community data matrix (see meta-data).
DOI: 10.5061/dryad.g6c5q/1
title: Acoustic detections

description: Date (in two weeks intervals) and shark ID's of acoustically detected individuals
DOI: 10.5061/dryad.g753g/1
title: Evans et al. JEB 2015

description: Please see paper for details on data collection and experimental design.
DOI: 10.5061/dryad.q4t65/1
title: RHX_Uncertainties-1.0

description: MATLAB (2014a) code and supplementary data for Hare, VJ (2015) Theoretical constraints on the precision and age range of rehydroxylation dating. R. Soc. open sci.
DOI: 10.5061/dryad.qh3mm/1
title: 10.1371journal.pone.0128467 SUPPORT INFORMATION

description: Zip file contains all raw data files organized by figure
DOI: 10.5061/dryad.r6m04/1
title: MESO1.1.fastq
DOI: 10.5061/dryad.rp7n9/1
title: output data from the sequencing machine

description: Data sequenced on an eighth of a PicoTiterPlate of a Roche® 454 FLX sequencing instrument
DOI: 10.5061/dryad.1797v/1
title: Thaleichthys pacificus, Osmeridae RAD sequences for putative neutral SNP loci

description: File consists of loci name, loci sequence, and SNP location in comma delimited file.
DOI: 10.5061/dryad.1797v/2
title: Thaleichthys pacificus, Osmeridae RAD sequences from putative adaptive SNP loci

description: File consists of loci name, loci sequence and SNP location in comma delimited format
DOI: 10.5061/dryad.1797v/3
title: Thaleichthys pacificus, Osmeridae putative adaptive SNP loci

description: This file in genpop format and contains 193 SNPs per sample
DOI: 10.5061/dryad.1797v/4
title: Thaleichthys pacificus, Osmeridae putative neutral loci

description: This file is in genpop format and contains 3,911 SNPS per sample
DOI: 10.5061/dryad.1813.1
title: Data from: The making of a rapid plant invader: genetic diversity and differentiation in the native and invaded range of Senecio inaequidens
DOI: 10.5061/dryad.1813.2
title: Data from: The making of a rapid plant invader: genetic diversity and differentiation in the native and invaded range of Senecio inaequidens
DOI: 10.5061/dryad.1813.2/1.2
title: AFLP_microsatellites_Senecio_inaequidens_Corr
DOI: 10.5061/dryad.217t3/1
title: Data for the analysis of bison trails

description: Data used for the directional analysis of bison trails with respect to directional persistence, the target meadow, and the nearest canopy gap.
DOI: 10.5061/dryad.2p31f/1
title: Archived Data with Analysis Script and Functions

description: Data and R code used for analyses and base figure generation.
DOI: 10.5061/dryad.2qf0t/3
title: Experiment5

description: Fasta file of amplicon reads from Experiment 5 for the Ion Torrent. The file non-dereplicated and has only been separated based on MID (index) tag. Primers have not been removed and no quality or abundance filtering has been performed on the fasta file.
DOI: 10.5061/dryad.34702/1
title: host_distribution
DOI: 10.5061/dryad.3754b/1
title: Pappas_et_al_all data
DOI: 10.5061/dryad.37n6f/1
title: Long-term mapped data and R scripts

description: This file includes extracted demographic data used in our paper from five study sites in Western USA. It includes all R scripts for relevant analyses as well, such as conducting model selection and Integral Projection Model.
DOI: 10.5061/dryad.418b0/1
title: Nagy_et_al_combined_data

description: This file contains the following data in separate sheets: Importance Value Index, Leaf Area Index, large woody plants, microclimate, species composition, environmental data for analysis of species composition, large woody plant distribution, vegetation cover, and water table.  Each of the above sheets in excel has an accompanying metadata sheet offering further explanation of the data.
DOI: 10.5061/dryad.573pm/1
title: AFLP matrix for Doronicum clusii aggregate (Asteraceae)

description: AFLP data matrix (as comma separated file) of the Doronicum clusii aggregate (Asteraceae). Sample names have the following format: Taxon name_population number_individual number.
DOI: 10.5061/dryad.5rm6d/3
title: Supplementary text file T1.

description: Representative sequences from each of the 69 OTUs.
DOI: 10.5061/dryad.5rm6d/4
title: Complete Trebouxia ITS alignment

description: Complete Trebouxia ITS alignment (n=2356), clades 'A', 'G', 'I', and 'S'.
DOI: 10.5061/dryad.73k5g/1
title: Datafiles for each metric.

description: Life history metrics for Bombus terrestris colonies reared at two different temperatures and over two replicate experiments. See ReadMe file for a more detailed description of each data file.