cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.15dm3/1
title: Flowering data of epiphytic plants

description: Phenology data from 104 epiphytic species. Data are frequency of flowering plants per species and census date. Data collected on a bimonthly frequency over two years (2012 and 2013).
DOI: 10.5061/dryad.2501p/1
title: _MG_3569 material photo

description: strongly curved perianth, 3-lobed limb, as well as 3-lobed gynostemium, anthers 6, adnate in 3 pairs to the base of gynostemium, opposite to the lobes
DOI: 10.5061/dryad.696js/3
title: mating(dryad)

description: Daily mating behavior and coloration measurements for study males (Aim 3)
DOI: 10.5061/dryad.6b6q5/1
title: Weather Data

description: Hourly air temperature data from March 12-18, 2017, obtained from the La Selva station automated weather data collection: http://www.ots.ac.cr/meteoro/default.php?pestacion=2; accessed April 16, 2017.
DOI: 10.5061/dryad.6b6q5/2
title: Day/Night CTmax

description: Critical thermal maxima of Ectatomma ruidum ant foragers collected either diurnally (from 1400-1430 h) or nocturnally (from 400-430 h) on March 14, 2017.
DOI: 10.5061/dryad.6b6q5/3
title: Ant Forager Number

description: The number of ant foragers collected from each of 10 Ectatomma ruidum nests, both diurnally (from 1400-1430 h) and nocturnally (from 400-430 h) on March 14, 2017.
DOI: 10.5061/dryad.6hf6b/1
title: Water abiotics measurements

description: Variables: ID, Species, Density and Replicate are explained in metadata document. Each ID is an experimental unit. The variable Date gives date at which the following variables were measured: Temperature, pH1, Oxygen, Conductivity, Alkalinity, pH2, Turbidity, TON, NH4, PO4, NO2, NO3
DOI: 10.5061/dryad.6hf6b/2
title: epiphyton

description: Epiphyton data from PVC strips. Variable mesocosmID links to metadata.txt file. Variable Sample links to original raw spectrophotometer file. Variable date gives the date. The following four variables were used to calculate the epiphyton and pheopigment density per surface area (last threecolumns): 665-0, 750-0, 665-a, 750-a, chl-a (ug), pheo (ug), surface (cm2)
DOI: 10.5061/dryad.70585/1
title: PLYFILES

description: A zip archive of .ply files, preserving the digitized 3D models of all of the mice sampled for this project.
DOI: 10.5061/dryad.70585/2
title: LANDMARKFILES

description: All of the landmark data sets corresponding to the .ply models used in the analyses.
DOI: 10.5061/dryad.70585/3
title: Landmarks and Rcode

description: Word document containing R code for geometric morphometric analysis of landmark sets as outlined in the paper.
DOI: 10.5061/dryad.755d6/1
title: Body SIze Evolution in Odonates Data File
DOI: 10.5061/dryad.7hr7f/1
title: Whitelist_STACKS

description: This R script creates a whitelist to input into STACKS v. 1.35, by eliminating SNPs from the last bp positions, as well as loci with exceedingly high genetic diversity based on theta.
DOI: 10.5061/dryad.800pj/1
title: Cell Centre Crypt Simulation

description: Code for simulations presented in the paper
DOI: 10.5061/dryad.8hs71/2
title: xml data files for SNAPP analyses in BEAST2

description: xml data files (ddRAD, ddRADeco, RAD, Exon and UCE) used in SNAPP analyses implemented in BEAST2
DOI: 10.5061/dryad.95t87/1
title: ColorData1
DOI: 10.5061/dryad.95t87/2
title: ColorData2
DOI: 10.5061/dryad.95t87/3
title: ColorData3
DOI: 10.5061/dryad.95t87/4
title: gInverseA
DOI: 10.5061/dryad.95t87/5
title: RScript
DOI: 10.5061/dryad.95t87/6
title: ReadMe
DOI: 10.5061/dryad.b4vv0
title: Dryad Item 10.5061/DRYAD.B4VV0
DOI: 10.5061/dryad.dv4mg/1
title: Raw_sequences_Plate_1

description: Raw Illumina reads from the first plate of our sequencing run. A map of the plate is in the file Plate_map_for_Illumina to match individuals and populations with wells on the plates.
DOI: 10.5061/dryad.dv4mg/2
title: Raw_sequences_Plate_2

description: Raw Illumina reads from the second plate of our sequencing run. A map of the plate is in the file Plate_map_for_Illumina to match individuals and populations with wells on the plates.
DOI: 10.5061/dryad.dv4mg/3
title: Raw_Sequences_Plate_3

description: Raw Illumina reads from the third plate of our sequencing run. A map of the plate is in the file Plate_map_for_Illumina to match individuals and populations with wells on the plates.
DOI: 10.5061/dryad.dv4mg/5
title: Corallium_rubrum_genotypes

description: Microsatellite genotypes of Corallium rubrum used in analyses.
DOI: 10.5061/dryad.dv4mg/6
title: Paramuricea_clavata_genotypes

description: Microsatellite genotypes for Paramuricea clavata used in our analyses. This file contains only those genotypes not previously published (see publication for information).
DOI: 10.5061/dryad.dv4mg/7
title: Alignment_Amphipholis_squamata_16S

description: Arlequin-formatted file of alignment of 16S sequences from Amphipholis squamata used in this publication, with population information.
DOI: 10.5061/dryad.gm073.1/18.1
title: prop_Tx430_distorsion
DOI: 10.5061/dryad.gm073.2
title: Data from: Increased power to dissect adaptive traits in global sorghum diversity using a nested association mapping population
DOI: 10.5061/dryad.gm073.2/1.2
title: Raw hapmap file

description: Illumina Hi-Seq data
DOI: 10.5061/dryad.gm073.2/2.2
title: nam_composite
DOI: 10.5061/dryad.h7h32/1
title: Gac-HiC revised genome assembly

description: G. aculeatus Hi-C revised genome assembly with 125 previously unassigned contigs assigned to gaps.
DOI: 10.5061/dryad.h7h32/2
title: Unassigned contigs narrowed to linkage groups

description: 1,263 previously unassigned contigs narrowed to linkage groups
DOI: 10.5061/dryad.h7h32/3
title: G. aculeatus BioNano Irys optical genome map
DOI: 10.5061/dryad.hd45h/1
title: allele frequencies in virus populations over time

description: This data set describes the frequencies of mutant alleles relative to the ancestral genome in Sindbis virus populations over the course of an evolution experiment. Virus populations were sampled at 8 time points, labeled in the table by experimental passage number. All virus samples were prepared and sequenced in duplicate. The table reports frequencies for mutant alleles that were detected in both technical replicates at a frequency &gt;0.01. For these frequencies, the mean of the two technical replicates is reported. Alleles are named by the position of the nucleotide in the genome and the base detected. Raw sequencing data used to generate this table is in the process of being deposited in SRA.
DOI: 10.5061/dryad.m4h4b/1
title: PONE-D-16-46185_R2 cumulative data

description: Excel File containing sheets titled with the figures and tables of the given manuscript accepted by PLOS ONE
DOI: 10.5061/dryad.m944v/1
title: Field data

description: Field data. Grasshoppers using different strategies to improve camouflage: positioning behavior and background matching in a novel urban habitat
DOI: 10.5061/dryad.m944v/2
title: Escape-strategy data

description: Escape behavior data ( FID and flight distance) of grasshoppers in a urban habitat
DOI: 10.5061/dryad.m944v/3
title: Virtual predation data

description: Data from a virtual predation experiment (in a touch screen) of grasshoppers using different strategies of camouflage and humans as predators.
DOI: 10.5061/dryad.m944v/4
title: R code

description: R code used for statistical analyzes
DOI: 10.5061/dryad.nm948/1
title: Figure 1 data matrix

description: 304 contigs, 53 complete dipteran mitochondrial genomes and 2 mecopteran outgroups from Genbank. 13 mitochondrial protein coding genes (PCGs) and 2 rRNAs were concatenated to form this data matrix. All sequences contain nad6. First and second positions were RY-coded, third position was not included.
DOI: 10.5061/dryad.nm948/2
title: Supplementary Figure S4 data matrix

description: 304 contigs, 53 complete dipteran mitochondrial genomes from Genbank, 16 partial dipteran mitogenomes from Wiegmann et al. (2011) and 2 mecopteran outgroups from Genbank. 13 mitochondrial protein coding genes (PCGs) and 2 rRNAs were concatenated to form this data matrix. All sequences contain nad6. First and second positions were RY-coded, third position was not included.
DOI: 10.5061/dryad.r17ss/1
title: Genotypes

description: Tab separated value file containing genotypes of studied populations. The genotypes were obtained from 8 nuclear microsatellite loci as part of the study, the loci themselves were identified in previous works, cited in the paper. Column 'Sample ID' contains arbitrary codes that identify individual trees. Informations about populations identified by column 'Site ID' are located in supplementary material provided with the paper. Each locus has two columns ('_1' and '_2') that contain the unphased diploid data. Missing data are indicated by the string 'NA', allelle names approximately reflect the size of allelle in basepairs, and homozygotes contain the same value in both columns.
DOI: 10.5061/dryad.sc3np/5
title: Nest Survival

description: Red-faced warbler nest success data
DOI: 10.5061/dryad.sc3np/6
title: Nestling Growth

description: Nestling growth rate data
DOI: 10.5061/dryad.sc3np/7
title: Nestling Period Food Abundance

description: Peak nestling period food abundance data
DOI: 10.5061/dryad.sr595/11
title: Fig4b_data_Excel

description: An excel file containing just the data-sheets provided under the same name for those with no access to jnb files. (Data for figure 4b in the manuscript.)
DOI: 10.5061/dryad.sr595/12
title: FigS5_Export

description: An excel file containing just the data-sheets provided under the same name for those with no access to jnb files. (Data for Fig. S5. )
DOI: 10.5061/dryad.sr595/13
title: Figure3-All_Excel

description: An excel file containing just the data-sheets provided under the same name for those with no access to jnb files. (Data for all families shown in Fig. 3. )
DOI: 10.5061/dryad.sr595/14
title: LaminAC Statistics_Excel

description: An excel file containing just the data-sheets provided under the same name for those with no access to jnb files. (Data for comparing lamin and dapi stains. )
DOI: 10.5061/dryad.sr595/15
title: Validation Stats_Excel

description: An excel file containing just the data-sheets provided under the same name for those with no access to jnb files. (Data for validation statistics in Table 1.)
DOI: 10.5061/dryad.sr595/3
title: Fig4b_Data

description: Sigma-plot data file for figure 4b in the manuscript. An excel file containing just the data-sheets is also provided under the same name for those with no access to jnb files.
DOI: 10.5061/dryad.sr595/4
title: FigS5

description: Sigma-plot file with data for Fig. S5.  An excel file containing just the data-sheets is also provided under the same name for those with no access to jnb files.
DOI: 10.5061/dryad.sr595/5
title: Fig3_Graphs

description: Sigma plot file containing data for other all families shown in Fig. 3.  An excel file containing just the data-sheets is also provided under the same name for those with no access to jnb files.
DOI: 10.5061/dryad.sr595/6
title: LaminAC Statistics

description: Sigma Plot Data file containing the data for comparing lamin and dapi stains.  An excel file containing just the data-sheets is also provided under the same name for those with no access to jnb files.
DOI: 10.5061/dryad.sr595/7
title: Validation Stats

description: Sigma-Plot file containing data for validation statistics in Table 1.  An excel file containing just the data-sheets is also provided under the same name for those with no access to jnb files.
DOI: 10.5061/dryad.t4j7k/1
title: maclean_rhodo_understorey_plot

description: Plot level data on average percent cover and species richness in plots spanning a range of 1) R. ponticum density and 2) time since R. ponticum clearance. Also included are data on soil nutrient status in a subset of the plots.
DOI: 10.5061/dryad.t4j7k/2
title: maclean_rhodo_comcomp

description: Community composition data from plots spanning 1) a gradient of increasing R. ponticum density and 2) a gradient of increasing time since R. ponticum clearance.
DOI: 10.5061/dryad.t54h6/1
title: Full dataset on disease patterns and traits

description: Data on species' infection patterns (prevalence and intensity) and survival during epizootic events (testing dataset) with full suite of traits. Raw trait data (unimputed) is also included. See the Appendix for full details of trait data collection and explanation.
DOI: 10.5061/dryad.t54h6/2
title: Phylogeny

description: Phylogeny used for testing patterns of phylogenetic signal. Modified from Pyron & Wiens 2013. See Appendix for details on how species were added to the tree.
DOI: 10.5061/dryad.v2t6b/1
title: rTL_adults

description: Relative telomere length and various measurements of adult bluethroats
DOI: 10.5061/dryad.v2t6b/2
title: epm-wpm

description: Pairwise comparison of relative telomere length of extra-pair male and within-pair male
DOI: 10.5061/dryad.v2t6b/3
title: rTL_offspring

description: Relative telomere length and other characteristics of nestling bluethroats
DOI: 10.5061/dryad.vd0nn.1/1.1
title: Plots and traits data

description: The data file comprises three sheets, corresponding to regeneration plot data, adult tree plot data and tree species traits data reported in Osuri et al. (2017). Successional status, seed dispersal mode and overstorey species influence tree regeneration in tropical rain-forest fragments in Western Ghats, India. Journal of Tropical Ecology, 33(4), 270-284. doi: https://doi.org/10.1017/S0266467417000219
DOI: 10.5061/dryad.vf8sm/4
title: Scaffold Chromosome Information

description: File with scaffold information for autosomal, x chromosome and y chromosome. Scaffolds relate to the names on the MPB genome
DOI: 10.17632/3rxyxrtzrk.2
title: Data for: Density Functional Study of the Thermodynamic Properties and Phase Diagram of the Magnesium Hydride

description: Phase Diagram for Magnesium Hydride Polymorphs
DOI: 10.5061/dryad.10g45/1
title: Brain areas for familiar faces (single subjects)

description: Structural images and significance maps for the contrast Faces vs. Objects of the Face Localizer Experiment and the Face and Object Familiarity Experiment for the subjects M1-M4.
These compressed NIfTI files were generated using the freely available FreeSurfer package, a software application developed at the Martinos Center for Biomedical Imaging by the Laboratory for Computational Neuroimaging, available at , and files may be viewed using this software. Enhanced activation is show as negative values, due to the use of contrast agent for functional magnetic resonance imaging scanning.
DOI: 10.5061/dryad.24c24/1
title: Ferret_Microsatellite_Location_Data

description: Ferret data used in the analysis.
DOI: 10.5061/dryad.253hr/1
title: McLeish_etal_Plant_Virus_Data

description: The data comprise a 15 x 1936 matrix with samples as rows and columns as year, season, habitat, species, and infections of 11 the plant viruses assayed in the study.
DOI: 10.5061/dryad.2fr3k/1
title: Microsatellite genotypes of Epidalea calamita

description: DNA microsatellite genotypes of tadpoles and adult males and females of Epidalea calamita. The sizes of the alleles (in base pairs) of each individual at 16 loci are written in a single row. Missing data are coded as '0'.
DOI: 10.5061/dryad.2fr3k/2
title: Microsatellite genotypes of Hyla molleri

description: DNA microsatellite genotypes of tadpoles and adult males and females of Hyla molleri. The sizes of the alleles (in base pairs) of each individual at 18 loci are written in a single row. Missing data are coded as '0'.
DOI: 10.5061/dryad.2fr3k/3
title: Microsatellite genotypes of Pelophylax perezi

description: DNA microsatellite genotypes of tadpoles and adult males and females of Pelophylax perezi. The sizes of the alleles (in base pairs) of each individual at 15 loci are written in a single row. Missing data are coded as '0'.
DOI: 10.5061/dryad.2fr3k/4
title: Capture-mark-recapture histories of Epidalea calamita, Hyla molleri and Pelophylax perezi

description: Three .inp files are included, each one comprising the capture-mark-recapture (CMR) histories of each species used for MARK analyses in the manuscript. An additional Excel file shows information about the dates of CMR sessions, the sex of each individual (males coded as 10 and females coded as 01 in the inp files) and the total captures for each individual and in each CMR session.
DOI: 10.5061/dryad.2p4k0/1
title: Supplementary_Information_1_2Dv3D_Rfolder

description: A folder containing all pertinent data (landmark data, etc.) and an annotated R script that performs all operations conducted in R.
DOI: 10.5061/dryad.2rh22/1
title: All trout sampled

description: File including the length, weight, and river sampled from for each fish in the study, as well as the unique identifier of each individual. Individuals can be traced through all other files through this identifier.
DOI: 10.5061/dryad.2rh22/2
title: Kicksampled invertebrates

description: Number of invertebrates from each taxonomic group found in kicksamples taken in each stream. The number of invertebrates was estimated by counting a large subsample, then multiplying up to reach the number of inverts in the whole sample.
DOI: 10.5061/dryad.5jg1t/1
title: Raw data on intact seeds in mallards

description: This file contains data of the faecal samples collected from the field in different locations with date, faeces sample mass, plant species name, and the number of seeds per taxon. This file was made with Microsoft Word 2016
DOI: 10.5061/dryad.5pt27/1
title: Sequence data, character data, and phylogenies

description: Data file includes RAD and mtDNA phylogenies for the Ctenotus piankai group, plus raw genetic data and pairwise RAD distance matrix for individuals. Also includes file with morphological characters for all individuals scored.
DOI: 10.5061/dryad.654sm/1
title: Permutations- within community closeness

description: 10 000 permutations of within community closeness centrality
DOI: 10.5061/dryad.654sm/2
title: Permutations - within community degree

description: 10 000 permutations of within community degree
DOI: 10.5061/dryad.654sm/3
title: Permutations - whole population measures

description: 10 000 permutations of whole population measures degree and closeness
DOI: 10.5061/dryad.654sm/4
title: Census data giving births and deaths of whales

description: NOTE: IDs relate to those in other uploaded files
DOI: 10.5061/dryad.6b6q5/4
title: Acclimation Test

description: Critical thermal maxima of Ectatomma ruidum ant foragers exposed to experimental manipulations of temperature (at 3, 25, or 33 degrees Celsius) for 3, 6, or 12 hours between March 16 and 18, 2017.
DOI: 10.5061/dryad.6b6q5/5
title: README

description: README file describing all data files and the R script.
DOI: 10.5061/dryad.6b6q5/6
title: R script

description: R script used for all analyses reported in the paper.
DOI: 10.5061/dryad.6hf6b/3
title: filamentousalgae

description: Gives the amount of filamentous algal biomass that was removed per mesocosm (links to metadata.txt) for each date (columns).
DOI: 10.5061/dryad.6hf6b/4
title: gasdata

description: Raw output of Los Gatos measurements on greenhouse gas. Use gasmetadata.txt to infer when actual measurements took place.
DOI: 10.5061/dryad.6hf6b/5
title: gasmetadata

description: Is used to make sense of gasdata.txt in that it holds the timepoints (Time-In) and some metadata on experimental units (mesocosmID, Block). The variable Seconds is the recalculated timepoint on gasdata.txt using the time-in.
DOI: 10.5061/dryad.6hf6b/6
title: overall-metadata

description: Holds the metadata on the experimental units used in the experiment, comprising of a number for each mesocosm (mesocosmID), the name of the plant that grew in the mesocosm (plantName), a codified plant name (plantCode), its initial density (density), the replicate number assigned (replicate), the spatial position in the experimental mesocosm configuration (X, Y), the date at which the mesocosm was harvested (harvestDate) and whether a species is native or non-native (plantOrigin)
DOI: 10.5061/dryad.6hf6b/7
title: phytoplankton

description: Data on the phytoplankton measurements (twice per week). First metadata (ID	Species	Density	Replicate), then actual data of Phytopam results: Diluted, GAIN, green (ug/l), yield, blue (ug/l), yield, brown (ug/l), yield, sumchl, DATE
DOI: 10.5061/dryad.6hf6b/8
title: plants

description: Data on plant biomass with variables mesocosmID (links to metadata.txt), DM.g.end (gives plant dry weight at harvest), PVI-after-acclimation (gives plant PVI three weeks after being planted), FM.g.start (fresh plant biomass at planting) and DMC (dry matter content).
DOI: 10.5061/dryad.7hr7f/2
title: Dataset_sumstats_r75_p10.vcf

description: VCF file used to calculate summary statistics and outputted from STACKS v. 1.35 using the parameters -r 75 and -p 10
DOI: 10.5061/dryad.7hr7f/3
title: Dataset_Structure_25missing

description: Structure input file allowing 25% missing data maximum.
DOI: 10.5061/dryad.7hr7f/4
title: sampleDownGeno2SFS_MOD

description: Python script that downsamples the population sizes and calculates the joint folded Site Frequency Spectrum (for the minor allele frequency) of two populations based on a vcf file. Modified from Papadopoulou and Knowles 2015 (DOI: http://dx.doi.org/10.5061/dryad.23hs1)
DOI: 10.5061/dryad.7mc93/1
title: ZacaDRB_Lepto_File1_Dryad

description: Data file contains information on ZacaDRB genotyping, HL and leptospirosis status.
DOI: 10.5061/dryad.7q523/1
title: BEAST input file

description: xml file for the divergence time estimates with the three calibration priors
DOI: 10.5061/dryad.7q523/2
title: PACoDATA

description: Input data used in the cophylogenetic analysis using the global-fit statistic tool PACo.
DOI: 10.5061/dryad.8m11n/1
title: Food web adjacency list for France river dataset

description: Adjacency list representing all feeding interactions for the France river dataset, as identified by a literature review of gut content analyses. 'Parent' column represents the source of the interaction. 'Child' column represents the target of the interaction. 'Sign' represents the effect of the Parent species on the Child species. Since feeding interactions are +/-, each predator-prey pair will be represented by two rows: one for the negative effect of predator on prey, and one for the positive effect of prey on predator.
DOI: 10.5061/dryad.8m11n/2
title: List of species for the France river network dataset
DOI: 10.5061/dryad.8m11n/3
title: List of species for the Tatoosh middle intertidal dataset
DOI: 10.5061/dryad.8m11n/4
title: Presence-Absence data for Tatoosh middle intertidal

description: Presence-absence data for species in the Tatoosh middle intertidal (space-separated data frame). First column is a site identifier, second column is the census year, and all other columns are presence/absence for a species in a given site-year. Data for different sites are separated with a row of NAs.
DOI: 10.5061/dryad.8m11n/5
title: Trophic interaction adjacency list for Tatoosh data set

description: Organized as for the France adjacency list, but with trophic (feeding) interactions for the Tatoosh data set.
DOI: 10.5061/dryad.8m11n/6
title: Nontrophic interaction adjacency list for Tatoosh data set

description: Organized identically to the France adjacency list, but contains nontrophic (non-feeding) interactions for the Tatoosh data set.
DOI: 10.5061/dryad.c7844/1
title: plant bee networks

description: Quantitative plant-wood nesting bee interaction networks sampled across four different post-fire age categories (freshly-burnt, intermediate-burnt, old-burnt and unburnt) in an arid ecosystem (Monte Desert of Villavicencio Nature Reserve, Mendoza, Argentina). Plant-bee interaction weights were estimated as the proportion of pollen grains from each plant species found on the trap-nest cells. The .zip file contains: the interaction matrices of the 14 sites; the diversity of floral resources available at each site (‘floral_resources.csv’); and a file with species ids, their respective codes used in the interaction matrices, and the post-fire age category of each site (‘species_ids_and_postfire_categories.xls’).