cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.c7p60/6
title: Maurolicus_spp_OpsinTree_RAxML

description: Gene coding region (CDS) inferred vertebrate opsin gene phylogeny based on a ML reconstruction in RAxML
DOI: 10.5061/dryad.c7p60/7
title: Maurolicus_spp_OpsinTree_GTRgamma

description: Gene coding region (CDS) inferred vertebrate opsin gene phylogeny based on a Bayesian reconstruction using a GTR & g model
DOI: 10.5061/dryad.c7p60/8
title: Maurolicus_spp_GalphaTransducinDatasetAlignment

description: Sequence alignment for the vertebrate Gα transducin gene phylogeny
DOI: 10.5061/dryad.c7p60/9
title: Maurolicus_spp_GalphaTransducinTree_RAxML

description: Vertebrate Gα transducin gene phylogeny based on a ML reconstruction using RAxML
DOI: 10.5061/dryad.f15q3/1
title: AKrev

description: Data relating to the occupancy of termites and ants in dead wood in Borneo.
DOI: 10.5061/dryad.f2mp4/1
title: Code and data for Tenhumberg et al.
DOI: 10.5061/dryad.fk266/1
title: Body mass at 36 generations

description: These data are the body masses for emerging beetles that are presented in Figure 1 of the manuscript (Fox & Messina). Each row is a single beetle.
DOI: 10.5061/dryad.gn5j6/1
title: Ptychomya data

description: This file contains three R objects. These objects are lists with 1) shape (or size) descriptors stored as Momocs objects and 2)  stratigraphic, geochronologic and taxonomic data stored as data frames, for the shell outline, ribbing pattern and shell size, respectively
DOI: 10.5061/dryad.gn5j6/2
title: Curves

description: This file contains isotopic and paleodiversity data, stored as R objects in data frame format.
DOI: 10.5061/dryad.gn5j6/3
title: Supplementary Figure 1

description: Supplementary Figure 1. Distortion generated by the sliding process on the shape of the ribs of Ptychoma, represented with different numbers of coordinates. (A) Original curve (1000 coordinates) representing the most complex ribbing pattern in our sample. (B) Curve transformed to optimum number of coordinates (416) before sliding. (C) Curve transformed to 416 coordinates after sliding. (D) Curve transformed to 300 coordinates after sliding. (E) Curve transformed to 100 coordinates after sliding. (F) Curve transformed to 30 coordinates after sliding. For sliding, the first and last coordinates are treated as fixed landmarks.
DOI: 10.5061/dryad.h6s2k/1
title: Simulation in CoMuS for BPP

description: This python script can be used to simulate datasets under the multispecies coalescent using CoMuS and to setup input files for analyzing these datasets in BPP. Use instructions are contained in the header of the file.
DOI: 10.5061/dryad.h6s2k/2
title: Simulation in CoMuS for STACEY

description: This python script can be used to simulate datasets under the multispecies coalescent using CoMuS and to setup input files for analyzing these datasets in STACEY. Use instructions are contained in the header of the file.
DOI: 10.5061/dryad.h6s2k/3
title: Simulation in ms for BPP

description: This python script can be used to simulate coalescent genealogies using ms and sequence datasets using ms, and then to setup input files for analyzing these datasets in BPP. Use instructions are contained in the header of the file.
DOI: 10.5061/dryad.h6s2k/4
title: Simulation in ms for STACEY

description: This python script can be used to simulate coalescent genealogies using ms and sequence datasets using ms, and then to setup input files for analyzing these datasets in STACEY. Use instructions are contained in the header of the file.
DOI: 10.5061/dryad.kd1d4/39
title: CHELSA_tmax10_2_land
DOI: 10.5061/dryad.kd1d4/40
title: CHELSA_tmax10_3_land
DOI: 10.5061/dryad.kd1d4/41
title: CHELSA_tmax10_4_land
DOI: 10.5061/dryad.kd1d4/42
title: CHELSA_tmax10_5_land
DOI: 10.5061/dryad.kd1d4/43
title: CHELSA_tmax10_6_land
DOI: 10.5061/dryad.kd1d4/44
title: CHELSA_tmax10_7_land
DOI: 10.5061/dryad.kd1d4/45
title: CHELSA_tmax10_8_land
DOI: 10.5061/dryad.kq6cp/1
title: Icelandic mutation accumulation model

description: Icelandic mutation accumulation model (Ibs 0.5-0.99 and Ibs 0.35) - secondary analysis of data from Kong et al. (2012) Rate of de novo mutations and the importance of father’s age to disease risk. Nature 488, 471–475. (doi:10.1038/nature11396), Fig. 4, p.474.
DOI: 10.5061/dryad.mn686/1
title: GIS and Scenario data

description: Contains GIS shape and mxd files used for 7 Arizona Maricopa County cities (Phoenix, Scottsdale, Tempe, Mesa, Glendale, Chandler, and Gilbert) landscape distribution maps and landscape area calculations. Also contains a powerpoint file with value creation and ROI scenario figures with accompanying calculation spreadsheet data embedded.
DOI: 10.5061/dryad.q39k3/1
title: CHS_alignment

description: Multiple alignment of CHS gene.
DOI: 10.5061/dryad.q39k3/2
title: ndhF_alignment

description: Multiple alignment of ndhF gene.
DOI: 10.5061/dryad.q39k3/3
title: PHYA_alignment

description: Multiple alignment of PHYA gene.
DOI: 10.5061/dryad.q39k3/4
title: CHS-PHYA_combined alignment

description: Multiple alignment of combined CHS/PHYA genes
DOI: 10.5061/dryad.qt71v/2
title: Figure 3 data
DOI: 10.5061/dryad.rh4qm/1
title: Acronyms of Functional Plant Traits

description: The file "Acronyms_Functional_Traits.csv" contain the acronyms of functional plant traits, the full name of functional plant traits, and a description. This document supports the data file “66_Species_vs_26_Plant_Functional_Traits.csv”.
DOI: 10.5061/dryad.rh4qm/3
title: 66 Riparian species and 26 Functional Plant Traits

description: The data file “66_Species_vs_26_Plant_Functional_Traits.csv” contains the scientific names of the 66 species used in the study and respective values for the 26 functional plant traits considered.
DOI: 10.5061/dryad.rh4qm/4
title: Sampling sites vs variables vs guilds

description: The file “Sites_vs_Environment_Hydrology_Land_Use_Guilds.csv” contains data on sampling sites and case studies, variables, and abundance of dominant riparian guilds.
DOI: 10.5061/dryad.s5d9q/2
title: Lernaea cyprinacea trinity assembly

description: Trinity assembly file with all contigs from reassembled Lernaea cyprinacea RNA-seq data.
DOI: 10.17632/pc4rrpjhzf.1
title: Data for: Development of an automated and open source GIS tool for reproducing the HAND terrain model

description: The HAND tool was developed using Python programming language which uses functionalities of a commercial geographic information system for constructing the HAND model and terrain map. This tool can be used in ArcGIS 10.2.
DOI: 10.5061/dryad.0j4b2/1
title: Appendix S3 - Data matrices

description: This file includes sample x OTU tables, taxonomic information, meta data, etc. Same file as Appendix S3 of the paper.
DOI: 10.5061/dryad.0j4b2/2
title: Appendix S4 - Nucleotide sequences

description: Nucleotide sequences of the OTUs obtained in the sequencing analysis. Same as Appendix S4 of the paper.
DOI: 10.5061/dryad.0jk8b/1
title: Swimming speed and body shape data for two populations of zebrafish

description: CSV file of phenotype records for 454 individuals with the following columns:.

Animal - a unique identifier per individual fish
Age - in days from fertilization to phenotype assay
Family - integer identifying groups of full siblings
Tank	- nested within family; each family reared in 2 tanks
Sex - male or female
Treatment - Control or Mutant
Ucrit - in cm/sec
SL - in mm
LM1.12 through LM9.10 - 10 body shape traits in units of centroid size.
DOI: 10.5061/dryad.0m7b5/1
title: data_individual_summary

description: Contains data on both Kittlitz’s (kip) and white-fronted (wfp) plover experimental individuals.
DOI: 10.5061/dryad.0m7b5/2
title: data_plover_relocations

description: Contains the relocation coordinates of experimental individuals used in the analysis.
DOI: 10.5061/dryad.0m7b5/3
title: data_wfp_behaviour_matrix

description: Contains a behavioural interaction matrix of experimental white-fronted plovers.
DOI: 10.5061/dryad.160mp/2
title: Full body CT scan of a live Chelydra serpentina with unilateral pulmonary aplasia

description: Full body CT scan of a live Chelydra serpentina (straight-line carapacial length: 29.12 cm) with unilateral pulmonary aplasia (Wildlife Rehabilitation Center of Minnesota Case Number 15-11926). The live pathological turtle was scanned on a Toshiba TSX-101A/7D.004 CT scanner at a slice thickness of 1 mm, and reconstructed in a bone algorithm (FC30) and a soft tissue algorithm (FC05). Prior to scanning, the turtle was given an intramuscular injection of 2.4 ml of 10 mg/ml alfaxalone (Alfaxan, Jurox Inc., Kansas City, MO) for sedation, and his head was covered with a towel.
DOI: 10.5061/dryad.17296/4
title: Individual participant ECAT results

description: Individual participant ECAT data of % accuracy for positive and negative self-referent words for the HC and MDD groups across the 3 visits. Shaded cells represent no data available. This data was used to generate Figure 3.
DOI: 10.5061/dryad.17296/5
title: Individual participant EREC data

description: Individual participant EREC data showing number of negative and positive self-referent words falsely recalled for the HC and MDD groups across the 3 visits. Shaded cells represent no data available. This data was used to generate Figure 4.
DOI: 10.5061/dryad.17296/6
title: Individual reward task data

description: Individual reward task data showing  % correct & incorrect symbol choices. This data was used to generate Figure 5.
DOI: 10.5061/dryad.2260h/1
title: community structure

description: Species richness, Mean phylogenetic distance (MPD), and Net relatedness index (NRI) for all experimental plots.
DOI: 10.5061/dryad.2260h/2
title: phylogeny

description: Phylogenetic tree for the 58 species that were observed in the experimental area.
DOI: 10.5061/dryad.2260h/3
title: betaNTI

description: The phylogenetic dissimilarity (beta NTI) of colonist and locally extinct species to the resident species.
DOI: 10.5061/dryad.2686c/1
title: fastq data of the assembled communities

description: Mix 1, 2 and 3 indicate the three different assembled communities. Primer pairs A, B, C and D are LoboF1/LoboR1, LoboF1/250R, ArF2/ArR5 and ArF2/LoboR1, respectively.
DOI: 10.5061/dryad.2686c/2
title: fastq data of the natural communities part1

description: B indicates primer pair LoboF1/250R. 1, 2, 3 and 4 (after primers) indicate the four different natural communities. 1, 2, 3, 4 and 5 (after hyphen) indicate the five samples of each natural community.
DOI: 10.5061/dryad.2686c/3
title: fastq data of the natural communities part2

description: D indicates the primer pair ArF2/LoboR1. 1, 2, 3 and 4 (after primers) indicate the four different natural communities. 1, 2, 3, 4 and 5 (after hyphen) indicate the five samples of each natural community.
DOI: 10.5061/dryad.37s4h/1
title: Species abundance (PAI)

description: Species abundance (PAI) per sampling site within both homogeneous pasture and heterogeneous coffee matrices. PAI is a abundance index calculated as the number of detections of a given species in a given sampling site, divided by the total number of point counts (N = 4).
DOI: 10.5061/dryad.37s4h/2
title: Biodiversity indexes per sampling site

description: All biodiversity indexes calculated (TD, FD, PD, PDses) per sampling site.
DOI: 10.5061/dryad.37s4h/3
title: Species functional traits

description: Species functional traits used to calculate the Functional Diversity.
DOI: 10.5061/dryad.3f8v2/1
title: Effect of temperature fluctuations on male fitness traits in Drosophila birchii

description: This Excel file contains 8 datasheets. Sheets 1-3 are for Experiments I ,II & III, containing information about transect, elevation of origin, isofemale line, focal male number and treatment. Data are for total cumulative offspring, number of matings and offspring per mating. Sheets 4-6 show wing centroid measurements for the same experiments respectively. Sheets 7-8 are summary line data for Experiments I and II used for heritability estimates and genetic correlations.
DOI: 10.5061/dryad.402c8/1
title: Testosterone_ejaculates

description: Pair combination, age of ejaculate at time of measurement ("incubation"), experimental week, estrus stage of teaser mare, Wang's coefficient of relatedness r, semen volume, total sperm number, stallion's blood testosterone before and after exposure to teaser mare (and ejaculation), further semen characteristics (as described in paper)
DOI: 10.5061/dryad.402c8/2
title: microsats

description: Genotypes of all mares and stallions on 20 microsatellite loci
DOI: 10.5061/dryad.42g20/1
title: Mutant allele and homozygote mutant genotype frequencies from experimental populations

description: This file contains data on mutant allele frequencies and homozygote mutant genotype frequencies at various time points (generations) in independent, replicate populations experimentally evolving in either a complex or simple mating environment. Each row corresponds to a frequency estimate from a particular population in a given generation. Columns are: mutant: the mutation in question; population: an arbitrary ID number given to each replicate population (6 populations per mutation, 3 in each treatment); treatment: simple vs. complex mating treatment; generation: the generation in which the given frequency was estimated; type: whether the frequency is that of the mutant allele (as estimate from a set of test crosses) or the mutant homozygote genotype; frequency - the frequency estimate expressed as a proportion.
DOI: 10.5061/dryad.55678/1
title: README
DOI: 10.5061/dryad.5k6gb/1
title: Magnetic Maps Raw Data

description: The file contains a folder with all the raw data from magnetic maps of figures 2, 3 and 4 of our article: L. Makinistian, I. Belyaev. 2018. Magnetic field inhomogeneities due to CO2 incubators shelves: A source of experimental confounding and variability? Royal Society Open Science.
DOI: 10.5061/dryad.6hm4p/22
title: EIGB_DECJ_map4.ase.tre

description: Ancestral state estimation for Grindelia biogeography (the basis of Figure 4).
DOI: 10.5061/dryad.6hm4p/23
title: Grindelia_vouchers.txt

description: Tab-delimited table with voucher information and GenBank numbers for the sequences used in the Grindelia analyses.
DOI: 10.5061/dryad.72nj2/1
title: Temperature, oyster survivorship and growth, and recruited invertebrate assemblage data

description: Data of the maximum temperatures that Sydney Rock Oysters experienced, their subsequent survivorship, growth and habitat formation, and the invertebrate communities that recruited to the oyster habitat during two field experiments in the Port Stephens estuary of New South Wales, Australia. Data was collected in 2014 and 2015.
DOI: 10.5061/dryad.911t3/1
title: Dispersal in S. sarasinorum

description: The data-set consists of body measurements, clutch size and egg weights of social spiders. There is information about the effect of food and colony size influencing dispersal tendencies.
DOI: 10.5061/dryad.b487r/1
title: Duffy_Johnson_Maxent_rasters_and_presence_records

description: Presence location and raster data used to run Maxent models.
DOI: 10.5061/dryad.b487r/2
title: Duffy_Johnson_JSDM_data

description: Raw data used to run Joint Species Distribution Models
DOI: 10.5061/dryad.c7p60/12
title: Maurolicus_spp_ArrestinTree_RAxML

description: Vertebrate arrestin gene phylogeny based on a ML reconstruction using RAxML
DOI: 10.5061/dryad.c7p60/13
title: Maurolicus_spp_ArrestinTree_GTRgamma

description: Vertebrate arrestin gene phylogeny based on a Bayesian reconstruction using a GTR & gamma model of sequence evolution
DOI: 10.5061/dryad.c7p60/14
title: Maurolicus_spp_OpsinGeneConversionDatasetAlignment

description: Alignment for rh2 opsin gene conversion phylogeny
DOI: 10.5061/dryad.c7p60/15
title: Maurolicus_spp_OpsinGeneConversionTree_RAxML

description: rh2 opsin gene conversion phylogeny based on a ML reconstruction using RAxML
DOI: 10.5061/dryad.c7p60/16
title: Maurolicus_spp_OpsinGeneConversionTree_GTRgamma

description: rh2 opsin gene conversion phylogeny based on a Bayesian reconstruction using a GTR & gamma model of sequence evolution
DOI: 10.5061/dryad.d851q/1
title: phyloSpecies

description: All species used in analyses
DOI: 10.5061/dryad.d851q/2
title: Sv1_PCA

description: Sensitivities of the stochastic growth rate to temporal autocorrelation in vital rates - results of simulations simLambdaTAC.R
DOI: 10.5061/dryad.d851q/3
title: Sv1_PCA_varCov

description: Sensitivity of stochastic population growth rate to temporal autocorrelation in vital rates using observed vital-rate covariances in simulations - results from simLambdaTAC_VarCov.R
DOI: 10.5061/dryad.d851q/4
title: matsMean

description: RData containing average MPMs for 454 study species
DOI: 10.5061/dryad.d87v3/1
title: Herrero-Jáuregui & Oesterheld 2017_Dryad

description: Data on species richness and diversity under different stocking rates of domestic herbivores in 48 studies all throughout the planet
DOI: 10.5061/dryad.fk266/2
title: Egg length at 36 generations

description: These data are the size of eggs laid by emerged females (a subsample of the females from the body size dataset) that are presented in Figure 2 of the manuscript (Fox & Messina). Each row is a single female. Egg lengths are the average of three eggs, in mm. All eggs that are measured were laid on mung bean.
DOI: 10.5061/dryad.fk266/3
title: Fecundity at 36 generations

description: These data are the lifetime fecundity of emerging females that are presented in Figure 3 of the manuscript (Fox & Messina). Each row is a single beetle.
DOI: 10.5061/dryad.fk266/4
title: Larval competition experiment

description: These data are the survival, development time and body masses of beetles emerging from seeds containing either 1 or 2 larvae. These data are presented in Figures 4 (survivorship), 5 (body mass) or 6 (development time) of the manuscript (Fox & Messina). Each row is a single beetle.
DOI: 10.5061/dryad.gj1mg/1
title: Morphology of Mictis profana after experimentally preventing leg developement. Data also from wild caught M. profana.

description: This data consists of morphological measurements of multiple morphological traits (pre-copulatory, post-copulatory and naturally selected), from two experimental groups. One group was prevented from developing mid-legs at their 5th instar, the other was prevented from developing much larger hind-legs. This data also contains morphological measures of wild-caught adults.
DOI: 10.5061/dryad.gm6kk/1
title: Cravens_et_al_2017_data

description: The data in this file is the data used in the analysis of Cravens et al. 2017. The data has been filtered from the raw output from the 'Bold' package in program R. Please see the 'remarks' worksheet for explanations of the abbreviations used in the data file. We can provide the raw, unfiltered output from the 'Bold' package if one is interested.
DOI: 10.5061/dryad.gm6kk/2
title: Representative sequences for identification of insects in BOLD database

description: This data file contains the data, in fasta file format, of each of the representative sequences obtained from clustering and filtering, that were input into the BOLD database for identification.
DOI: 10.5061/dryad.gn250/1
title: source file

description: Notes: 
1. includes all detected and tracked object data from deskewed volumes. 
2. Analyzed data excluded objects at volume boundaries, cut tracks and compound tracks.
3. Fitted amplitudes are converted to single molecule values from the calibration curve generated for each power condition before each experiment.
DOI: 10.5061/dryad.h6s2k/5
title: Posterior prediction in BPP

description: This python script can be used to perform posterior prediction by sampling the posterior of a BPP analysis, simulating new datasets using McCoal, and setting up input files for analyzing the simulated datasets in BPP. Use instructions are contained in the header of the file.
DOI: 10.5061/dryad.h6s2k/6
title: Posterior predictive test statistics

description: This python script can be used to calculate several posterior predictive test statistics using the output from a BPP empirical analysis and the associated posterior predictive BPP analyses. Use instructions are contained in the header of the file.
DOI: 10.5061/dryad.h6s2k/7
title: IbdSim Settings

description: This text file contains the simulation parameters used for the data simulations done in IBDSim.
DOI: 10.5061/dryad.h6s2k/8
title: Supplementary Table 1

description: This table shows summaries of the dataset characteristics for eight empirical datasets analyzed using posterior prediction.
DOI: 10.5061/dryad.h6s2k/9
title: Supplementary Table 2

description: This table shows summaries of the numbers of species, divergence time, and population size estimates for the empirical data (posterior) and across all posterior predictive datasets (PPD) for the seven datasets analyzed in BPP.
DOI: 10.5061/dryad.kc680/1
title: Survival

description: Survival dataset
DOI: 10.5061/dryad.kc680/2
title: Consumption

description: Consumption dataset
DOI: 10.5061/dryad.kc680/3
title: Hemolymph

description: Hemolymph dataset
DOI: 10.5061/dryad.kd1d4/46
title: CHELSA_tmax10_9_land
DOI: 10.5061/dryad.kd1d4/47
title: CHELSA_tmax10_10_land
DOI: 10.5061/dryad.kd1d4/48
title: CHELSA_tmax10_11_land
DOI: 10.5061/dryad.kd1d4/49
title: CHELSA_tmax10_12_land
DOI: 10.5061/dryad.kd1d4/50
title: CHELSA_bio10_1_land
DOI: 10.5061/dryad.kd1d4/51
title: CHELSA_bio10_2_land
DOI: 10.5061/dryad.kd1d4/52
title: CHELSA_bio10_3_land
DOI: 10.5061/dryad.kd1d4/53
title: CHELSA_bio10_4_land
DOI: 10.5061/dryad.mc534/1
title: Peters et al. GenotypeData

description: Allele size data for tree finches on Floreana Island, Galapagos "Ring#" refers to the identifier inscribed on an aluminum band around a bird's tarsus. ‘Cluster’ refers to population assignment based on analyses of microsatellite loci using the program STRUCTURE (C. parvulus, Hybrid, C. pauper). Remaining information refers to allele size (maximum height at peak of allele) at each of nine microsatellite loci (Gf01, Gf03, Gf04, Gf05, Gf06, Gf07, Gf11, Gf12, Gf13)
DOI: 10.5061/dryad.mc534/2
title: Peters et al. MorphologyData

description: Morphological measurements of tree finches sampled on Floreana Island, Galápagos in 2004, 2005, 2006, 2008, 2010, 2012, 2013 and 2014. Techniques for measuring morphological variables are described in the associated manuscript. ‘Putative population’ refers to assignment based on morphology for exploratory analyses (see associated manuscript and supplementary material). ‘Cluster’ and ‘Membership Coefficient’ refers to population assignment based on analyses of microsatellite loci (using the program STRUCTURE).
DOI: 10.5061/dryad.mc534/3
title: Peters et al. PairingData

description: Assortative pairing, genetic and morphological data for male and female tree finches sampled on Floreana Island, Galapagos, 2005, 2010, 2012, 2014 and 2014. Techniques for measuring morphological features are described in the associated manuscript. ‘Cluster’, ‘Cluster_2’ and ‘Membership Coefficient’ refers to population assignment based on analyses of microsatellite loci (using the program STRUCTURE).
DOI: 10.5061/dryad.mg5mk/1
title: Wood Duck laying sequence

description: Comma delimited file used to examine effects of incubation temperature and egg laying sequence of wood ducks (Aix sponsa) on length of the incubation period and body condition of day-old ducklings.
DOI: 10.5061/dryad.mg5mk/2
title: Laying sequence and parasitized nests

description: Comma delimited file used to test whether daily parasitism of nests across the laying sequence differed between incubation temperature treatments.
DOI: 10.5061/dryad.p781p/1
title: raw_data_Tewes_et_al_2017

description: raw data for AFLP loci, mass traces, glucosinolate concentrations, herbivore survival and population-based measures
DOI: 10.5061/dryad.pb6f2/1
title: Management of postnatal hypertension systematic review_dataset_Cairns_Oct2017

description: Excel spreadsheet containing data extracted from all 39 studies in the systematic review. The spreadsheet is split into multiple sheets to allow easier understanding of data.
DOI: 10.5061/dryad.pk8hp/1
title: data for pairwise site beta diversity