cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.8sm55/2
title: structure_input_file

description: Input genotype file for the program Structure. DNA bases encoded as A=1, C=2, G=3, T=4.
DOI: 10.5061/dryad.8sm55/3
title: Genalex-distance-matrix-and-PCA

description: Distance matrix input file for the program GenAlEx, and output from PCA analysis using default settings.
DOI: 10.5061/dryad.8sm55/4
title: MAF10-final-loci

description: Excel spreadsheet of SNPs with minor allele frequency of 0.10 or more, in variant call format (vcf). See samtools manual for detailed interpretation of this file.
DOI: 10.5061/dryad.8sm55/5
title: final-MAF10-tags

description: FASTA sequence file of "stacks" or restriction-site-associated tags. Stacks were created with the "stacks" pipeline as described in the text.
DOI: 10.5061/dryad.8sm55/6
title: Input-to-tblastx-search

description: FASTA file containing tags, or assembled contigs in lieu of tags, that had TBLASTX matches to the chicken reference genome at 1e-5. Contigs resulted from the assembly of paired reads plus an additional genomic sequencing run, see text for details. The tag that was replaced by a contig in this search is given in the header line.
DOI: 10.5061/dryad.8sm55/7
title: Sage-grouse-2-chicken-tblastx-summary

description: Spreadsheet containing match information for Sage grouse sequences that had TBLASTX matches to the chicken genome
DOI: 10.5061/dryad.cq5h4/3
title: Reconstructed Females

description: The reconstructed female data file contains pedigree reconstructed microsatellite genotype data for spawning females along with code id, sampling year, xy coordinates, and fork length of male spawning partner.
DOI: 10.5061/dryad.d3h31/1
title: Kimmel DRYAD deposits PLOS ONE

description: The ReadMe file contains a synopsis of data used for the Figures and Tables in the paper
DOI: 10.5061/dryad.db56v/10
title: polystyrene_50nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 50nm polystyrene nanoparticle represente by a single caustic dispersed in a glycerol-water mixture (90% of glycerol)
DOI: 10.5061/dryad.db56v/11
title: polystyrene_60nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 60nm polystyrene nanoparticle represente by a single caustic dispersed in a glycerol-water mixture (90% of glycerol)
DOI: 10.5061/dryad.db56v/12
title: polystyrene_80nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 80nm polystyrene nanoparticle represente by a single caustic dispersed in a glycerol-water mixture (90% of glycerol)
DOI: 10.5061/dryad.db56v/13
title: polystyrene_150nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 150nm polystyrene nanoparticle represente by a single caustic dispersed in a glycerol-water mixture (90% of glycerol)
DOI: 10.5061/dryad.db56v/14
title: polystyrene_300nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 300nm polystyrene nanoparticle represente by a single caustic dispersed in a glycerol-water mixture (90% of glycerol)
DOI: 10.5061/dryad.db56v/6
title: polystyrene_300nm_low-concentration_water

description: single particle tracking on a 300nm polystyrene nanoparticle dispersed in water represented by single caustic
DOI: 10.5061/dryad.db56v/7
title: polystyrene_500nm_low-concentration_water

description: single particle tracking on a 500nm polystyrene nanoparticle dispersed in water represented by single caustic
DOI: 10.5061/dryad.db56v/8
title: polystyrene_20nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 20nm polystyrene nanoparticle represente by a single caustic dispersed in a glycerol-water mixture (90% of glycerol)
DOI: 10.5061/dryad.db56v/9
title: polystyrene_30nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 30nm polystyrene nanoparticle represente by a single caustic dispersed in a glycerol-water mixture (90% of glycerol)
DOI: 10.5061/dryad.f8k84/10
title: eciton_concatenated.trees

description: Combined posterior tree distribution of BEAST analyses of Neotropical army ant SNP data based on concatenation.
DOI: 10.5061/dryad.f8k84/11
title: ariidae.log

description: Combined posterior parameter distributions of SNAPP analyses of Neotropical sea catfish SNP data with the multi-species coalescent model.
DOI: 10.5061/dryad.f8k84/12
title: eciton.log

description: Combined posterior parameter distributions of SNAPP analyses of Neotropical army ant SNP data with the multi-species coalescent model.
DOI: 10.5061/dryad.f8k84/13
title: eciton_concatenated.log

description: Combined posterior parameter distributions of BEAST analyses of Neotropical army ant SNP data based on concatenation.
DOI: 10.5061/dryad.f8k84/3
title: eciton.xml

description: SNAPP input file in XML format for analyses of Neotropical army ant SNP data with the multi-species coalescent model.
DOI: 10.5061/dryad.f8k84/4
title: eciton_concatenated.xml

description: BEAST input file in XML format for analyses of Neotropical army ant SNP data based on concatenation.
DOI: 10.5061/dryad.f8k84/5
title: ariidae.tre

description: Maximum-clade-credibility summary tree of SNAPP analyses of Neotropical sea catfish SNP data with the multi-species coalescent model.
DOI: 10.5061/dryad.f8k84/6
title: eciton.tre

description: Maximum-clade-credibility summary tree of SNAPP analyses of Neotropical army ant SNP data with the multi-species coalescent model.
DOI: 10.5061/dryad.f8k84/8
title: ariidae.trees

description: Combined posterior tree distribution of SNAPP analyses of Neotropical sea catfish SNP data with the multi-species coalescent model.
DOI: 10.5061/dryad.f8k84/9
title: eciton.trees

description: Combined posterior tree distribution of SNAPP analyses of Neotropical army ant SNP data with the multi-species coalescent model.
DOI: 10.5061/dryad.m7f9m/1
title: Activity budget, groups of 2+ bottlenose dolphins

description: Collected by the Shark Bay Dolphin Project in Shark Bay, Western Australia.
DOI: 10.5061/dryad.m7f9m/2
title: Activity budget, individual adult bottlenose dolphins

description: Collected by the Shark Bay Dolphin Project in Shark Bay, Western Australia.
DOI: 10.5061/dryad.m7f9m/3
title: Joins and leaves between adult bottlenose dolphins

description: Collected by the Shark Bay Dolphin Project in Shark Bay, Western Australia.
DOI: 10.5061/dryad.m7f9m/4
title: Bottlenose dolphin group size and sex composition

description: Collected by the Shark Bay Dolphin Project in Shark Bay, Western Australia.
DOI: 10.5061/dryad.mb342/1
title: % of 3 year mean in AP, NP and TE

description: Percentage of 3-year means for protein, non-protein energy and total energy intake in spring
DOI: 10.5061/dryad.mb342/2
title: Non-nutritional factors

description: Spring intakes of non-digestible fiber and tannin
DOI: 10.5061/dryad.mb342/3
title: Nutrients and energy intake in spring ACROSS 3 YEARS

description: Absolute macronutrient and energy spring intakes in 2013, 2014 and 2015
DOI: 10.5061/dryad.mb342/4
title: Seeds density and contributions to diets on a dry metters basis

description: Availability estimates and intake measures of seeds over 24 months
DOI: 10.5061/dryad.pd959.1/17.1
title: Standard Graphical Pars.R

description: Defines functions needed by IdahoIPMLifeCycleStats.R, IdahoWinnerTraits2Plots.R, KittiwakeWinnerTraitsFecSurv3.R, SizeQualityFunctionsPlot.R, and SizeQualityVarPartition.R
DOI: 10.5061/dryad.pd959.1/20.1
title: Utilities.R

description: Defines functions needed by IdahoIPMLifeCycleStats.R, IdahoWinnerTraits2Plots.R, KittiwakeWinnerTraitsFecSurv3.R, SizeQualityFunctionsPlot.R, and SizeQualityVarPartition.R
DOI: 10.5061/dryad.pd959.1/5.1
title: IdahoIPMLifeCycleStats.R

description: Code to generate Figs. 5 and 6
DOI: 10.5061/dryad.pd959.1/7.1
title: KittiwakeMatrices.R

description: Data used by KittiwakeWinnerTraitsFecSurv3.R.  Demographic data are taken from Steiner, U. K., S. Tuljapurkar, and S. H. Orzack. 2010. Dynamic heterogeneity and life history variability in the kittiwake. Journal of Animal Ecology 79:436–444 and Cam, E., W. A. Link, E. G. Cooch, J.-Y. Monnat, and E. Danchin. 2002. Individual covariation in
life-history traits: seeing the trees despite the forest. The American Naturalist 159:96–105.
DOI: 10.5061/dryad.pd959/25
title: Fit_Growth_JAGS.R

description: Produces numbers in Table C3.
DOI: 10.5061/dryad.pd959/30
title: Fit_Survival_Seedlings.R

description: Produces numbers in Table C1, produces Figure C1.
DOI: 10.5061/dryad.pd959/33
title: ModelingW.R

description: Produces numbers in Table C4, produces Figure C7.
DOI: 10.5061/dryad.pd959/34
title: SizeQualityElasticityAnalysis.R

description: Produces numbers in Table B2.
DOI: 10.5061/dryad.s5kp0/1
title: HD_data

description: The High density SNP genotypes ped and map files are included. A phenotype file stating the sex and the breed type of all the cattle samples involved in the study is also included.The README file includes the 957 SNPs showing conflict annotations between UMD3.1 and Btau4.2
DOI: 10.5061/dryad.vq087/1
title: DGRP Line Trait Means

description: Mean response of one- and four-week old male and female flies for DGRP lines. Traits include acclimation survival (AC), cold stress survival (CS), rapid cold hardening score (RCH), and starvation resistance (S). For AC and CS, data are presented as proportion of flies per vial that survived the treatment. RCH was calculated as the difference in survival between the AC and CS treatments. For S, data are presented as the average time until death per vial in hours.
DOI: 10.5061/dryad.vq087/2
title: Acclimation Survival of Chronologically Aged Flies

description: Acclimation survival of DGPR lines after each line was aged until the population was half of the starting population. The first column contains the Bloomington stock identification number, the second column (long.sur) contains the average line acclimation survival when the population had reached 50% of the starting population. The third column is the average number of days until 50% of the starting population had been reached. The fourth column is the average acclimation survival of each line at one week of age and the fifth column is the average acclimation survival of each line at four weeks of age. The fourth and fifth column were measured on a separate cohort of flies for each line.
DOI: 10.5061/dryad.vv1t9.1
title: Data from: Deployment of organic farming at a landscape scale maintains low pest infestation and high crop productivity in vineyards
DOI: 10.5061/dryad.vv1t9.1/2.1
title: Data_Muneret_et_al_JAE
DOI: 10.5061/dryad.vv1t9.2
title: Data from: Deployment of organic farming at a landscape scale maintains low pest infestation and high crop productivity in vineyards
DOI: 10.5061/dryad.vv1t9.2/2.2
title: Data_Muneret_et_al_JAE
DOI: 10.5061/dryad.0t9d3/1
title: Bird Walkabout dataset Las Cruces 2011/12

description: The folder contains two bird census datasets associated with Kormann et al. JAE 2018. Further details can be seen in the metadata files. Methods are described in the Supp. Inf. of the original article.
DOI: 10.5061/dryad.132g8/1
title: Nesting sites for Apis dorsata

description: Position of nesting sites of the species Apis dorsata in a 68 km2 study zone. First column is a site identifier, second and third columns are the latitude and longitude of the nesting site, fourth column is number of nests in each site, fifth column is the village name, sixth column is the land-use type (coffee agroforestry plantation or forest fragment), and last column is the census year. The data have been collected in February-March 2014.
DOI: 10.5061/dryad.1cv08/6
title: GlobTherm, a global database on thermal tolerances for aquatic and terrestrial organisms, Excel format

description: This database includes thermal tolerance metrics for 2,133 species of multicellular algae, plants, fungi, and animals in 43 classes, 203 orders and 525 families from both aquatic, and terrestrial realms, extracted from published studies. Abbreviated citations are included in the 'REF_min' and 'REF_max' variable in the data file. For full citations, please see the attached workbook, "References_1_09_2017.xlsx". 

The data are available in both Excel and CSV formats in the Dryad Digital Repository (doi:10.5061/dryad.1cv08). Updates to the data and metadata will be curated through the iDiv data portal (https://idata.idiv.de/). For example, in the future we plan to include interspecific variation in the dataset, to provide multiple estimates of thermal tolerance limits for a given species where estimates determined using the best possible methods will be more highly ranked.
DOI: 10.5061/dryad.1cv08/7
title: GlobTherm, a global database on thermal tolerances for aquatic and terrestrial organisms, CSV format

description: This database includes thermal tolerance metrics for 2,133 species of multicellular algae, plants, fungi, and animals in 43 classes, 203 orders and 525 families from both aquatic, and terrestrial realms, extracted from published studies. Abbreviated citations are included in the 'REF_min' and 'REF_max' variable in the data file. For full citations, please see the attached workbook, "References_1_09_2017.xlsx". 

The data are available in both Excel and CSV formats in the Dryad Digital Repository (doi:10.5061/dryad.1cv08). Updates to the data and metadata will be curated through the iDiv data portal (https://idata.idiv.de/). For example, in the future we plan to include interspecific variation in the dataset, to provide multiple estimates of thermal tolerance limits for a given species where estimates determined using the best possible methods will be more highly ranked.
DOI: 10.5061/dryad.2mm71/1
title: Spectral data

description: Spectral data containing raw FTIR spectra of pollen (first row: wavenumbers, subsequent rows: absorbance values)
DOI: 10.5061/dryad.37bj2/12
title: C0006PET2_DICOM

description: PET data of single scan
DOI: 10.5061/dryad.37bj2/13
title: C0007PET1_DICOM

description: PET data of single scan
DOI: 10.5061/dryad.37bj2/14
title: C0007PET2_DICOM

description: PET data of single scan
DOI: 10.5061/dryad.37bj2/15
title: C0008PET1_DICOM

description: PET data of single scan
DOI: 10.5061/dryad.37bj2/16
title: C0008PET2_DICOM

description: PET data of single scan
DOI: 10.5061/dryad.37bj2/17
title: C0009PET1_DICOM

description: Image data from single PET scan
DOI: 10.5061/dryad.37bj2/9
title: C0005PET1_DICOM

description: PET data of single scan
DOI: 10.5061/dryad.54k41/1
title: data_Rana_temporaria_pairs

description: Contains raw data on pairs and singles of Rana temporaria, collected in the field at two locations. The location Fabrikschleichach (WGS 1984, 49.924 N, 10.555 E) and the location Kleiwiesen (WGS 1984, 52.328 N, 10.582 E). Given are the locations, the date and year of capture, if available the time of the day, the single ponds which were fenced to measure migrating individuals, sex, weight in g and snout-vent-length in mm of individuals; status (paired, paired inside of buckets and single individuals); SVL difference of pairs (male SVL minus female SVL) and day of capture (from the start of the migration per year).
DOI: 10.5061/dryad.54k41/2
title: data_Rana_temporaria_migration

description: Contains the raw data on the migration of Rana temporaria individuals in the location Fabrikschleichach (WGS 1984, 49.924 N, 10.555 E). Single ponds were fenced and individuals captured twice daily. Given are the date and year of capture, the day of capture (from the start of migration per year), the name of the ponds, sex of individual frog, weight in g and snout-vent-length in mm per individual. Additionally the status of each individual (arrived in a pair or as single).
DOI: 10.5061/dryad.54k41/3
title: data_Rana_temporaria_fertilisation_success

description: Contains raw data of all pairs that were used for the fertilisation success experiment. All individuals are from the location Kleiwiesen (WGS 1984, 52.328 N, 10.582 E). Given are clutch ID, snout-vent-length in mm of male and female per pair, the number of eggs per clutch, the size difference of male-female in mm, the log transformed data of female size and egg number, the number of unfertilized eggs, the number of developed embryos, the proportion of fertilized eggs (number of embryos/number of eggs) and the fertilisation success in % (proportion*100).
DOI: 10.5061/dryad.54k41/4
title: data_Rana_temporaria_mating_speed

description: Contains raw data of all trials of the mating speed experiment (n=44). Given are snout-vent-length in mm for female, small male and large male per trial; wich male was faster in grabbing the female first (Male_ampl); the size difference of female and non-amplexed male in mm; the size difference of female and male in amplexus in mm.
DOI: 10.5061/dryad.5q91d/1
title: Phylogenetic Analyses (trees, alignments, filtered regions)

description: This zipped directory contains the phylogenetic trees, sequence alignments, and filtered regions.
DOI: 10.5061/dryad.7m48r/2
title: TPS files

description: TPS files with digitized landmarks (of both lateral and dorsal views).
DOI: 10.5061/dryad.7m48r/3
title: MorphoJ script

description: MorphoJ script for all geometric morphometric analyses performed.
DOI: 10.5061/dryad.7m48r/4
title: Thin plate spline

description: R script for thin plate spline.
DOI: 10.5061/dryad.7m48r/5
title: Supporting Information Godoy et al

description: Supporting Information with supplementary text (with further explanation on the reconstruction of the ancestral ontogenetic trajectory), as well as tables and figures (with supplementary results).
DOI: 10.5061/dryad.85s4m/1
title: Datasets for the MS FE 2017 00585 R1

description: This Excel file contains all the data used in the study published in Functional Ecology present paper. This file has three Excel spreadsheet : 1) Data used for the linear models (part 1 of the paper) ; 2) Data used for the T-statistics (part 2 of the paper) ; 3) Data used for the Hypervolume calculus (part 3 of the paper).
DOI: 10.5061/dryad.8sm55/8
title: Expected-heterozygosity-FST-between-species

description: Excel spreadsheet comparing expected heterozygosity and FST at SNP loci, along with actual base counts from reads. Comparison is between the Greater Sage-grouse and Gunnison Sage-grouse samples, ie it does not include the Bi-state population for this analysis.
DOI: 10.5061/dryad.cc000/1
title: Interspecific dataset of 35,585 SNPs for phylogenetic analyses

description: This dataset contains 35,585 putatively unlinked SNPs from 121 individuals, representing 16 populations and 7 Amphiacusta species. This dataset was used for species tree and phylogenetic analyses.
DOI: 10.5061/dryad.db56v/15
title: polystyrene_500nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 500nm polystyrene nanoparticle represente by a single caustic dispersed in a glycerol-water mixture (90% of glycerol)
DOI: 10.5061/dryad.db56v/16
title: StAT_basic_2009a

description: labview based software that allows nanoparticle tracking with sub-nanometer precision. The caustic change of intensity can be taken in account by the software.
DOI: 10.5061/dryad.db56v/17
title: polystyrene_free_60nm_low-concentration_water

description: single particle tracking of a 60nm free-surfactant polystyrene nanoparticle represented by a single caustic dispersed in water
DOI: 10.5061/dryad.db56v/18
title: polystyrene_free_80nm_low-concentration_water

description: single particle tracking of a 80nm free-surfactant polystyrene nanoparticle represented by a single caustic dispersed in water
DOI: 10.5061/dryad.db56v/19
title: polystyrene_free_60nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 60nm free-surfactant polystyrene nanoparticle represented by a single caustic dispersed in a glycerol-water mixture (9:1)
DOI: 10.5061/dryad.db56v/20
title: polystyrene_free_80nm_low-concentration_glycerol-water_9_to_1

description: single particle tracking of a 80nm free-surfactant polystyrene nanoparticle represented by a single caustic dispersed in a glycerol-water mixture (9:1)
DOI: 10.5061/dryad.db56v/21
title: gold_10nm_low-concentration water

description: single particle tracking of a 10nm gold nanoparticle represented by a single caustic dispersed in water
DOI: 10.5061/dryad.db56v/22
title: gold_20nm_low-concentration water

description: single particle tracking of a 20nm gold nanoparticle represented by a single caustic dispersed in water
DOI: 10.5061/dryad.f8k84/1
title: Supplementary Material

description: Supplementary Texts S1-S2, Supplementary Figures S1-S7, Supplementary Tables S1-S7, and Supplementary References.
DOI: 10.5061/dryad.f8k84/7
title: eciton_concatenated.tre

description: Maximum-clade-credibility summary tree of BEAST analyses of Neotropical army ant SNP data based on concatenation.
DOI: 10.5061/dryad.g8f18/1
title: grass_temp_data

description: See README file.
DOI: 10.5061/dryad.h39n1/1
title: DNA recovery from chimpanzee tools

description: File contains chimpanzee tool sample, genotyping, and DNA quantification data
DOI: 10.5061/dryad.pd959.1/1.1
title: age2SizePars

description: Data file used by IdahoIPMFunctions.R
DOI: 10.5061/dryad.pd959.1/11.1
title: RpartitionSemel.R

description: Code to generate Figs. 2 and 24
DOI: 10.5061/dryad.pd959.1/12.1
title: SeedlingSurvPars.csv

description: Data needed by IdahoIPMFunctions.R
DOI: 10.5061/dryad.pd959.1/19.1
title: TwoStageWinnerTraits2Plots.R

description: Code to generate Fig. 3
DOI: 10.5061/dryad.pd959.1/2.1
title: BaselineParameterSets.Rdata

description: Data file used by SizeQualityFunctionsPlot.R and SizeQualityVarPartition.R
DOI: 10.5061/dryad.pd959.1/4.1
title: IdahoIPMFunctions

description: Defines functions needed by IdahoIPMLifeCycleStats.R and IdahoWinnerTraits2Plots.R
DOI: 10.5061/dryad.pd959/28
title: Fit_Growth_Seedlings.R

description: Produces Figure C5.
DOI: 10.5061/dryad.pd959/29
title: Fit_Survival_Older.R

description: Produces numbers in Table C1.
DOI: 10.5061/dryad.pd959/31
title: JAGS_tables_v3.R

description: Produces numbers in Table C3.
DOI: 10.5061/dryad.r87p0/1
title: Probability of forest for 1900, 70% tree cover

description: This raster contains the median modelled probability of forest for the year 1900 and computed using a tree cover threshold of 70%.
DOI: 10.5061/dryad.r87p0/2
title: Probability of forest for 2000, 70% tree cover

description: This raster contains the median modelled probability of forest for the year 2000 and computed using a tree cover threshold of 70%.
DOI: 10.5061/dryad.r87p0/3
title: Forest and savanna distribution for 1900, 70% tree cover

description: This raster contains the modelled distribution of forest (coded 1) and savanna (coded 0) for the year 1900, and using a probability threshold of 0.5 and for 70% tree cover threshold.
DOI: 10.5061/dryad.r87p0/4
title: Forest and savanna distribution for 2000, 70% tree cover

description: This raster contains the modelled distribution of forest (coded 1) and savanna (coded 0) for the year 2000, and using a probability threshold of 0.5 and for 70% tree cover threshold.
DOI: 10.5061/dryad.r87p0/5
title: Forest changes between 1900 and 2000, 70% tree cover

description: This raster contains the changes in forest area between 1900 and 2000, for 70% tree cover threshold. The corresponding codes are: 0=savanna, 1=deforestation, 2=afforestation and 3=forest.
DOI: 10.5061/dryad.r87p0/6
title: Probability of forest for 1900, 75% tree cover

description: This raster contains the median modelled probability of forest for the year 1900 and computed using a tree cover threshold of 75%.
DOI: 10.5061/dryad.r87p0/7
title: Probability of forest for 2000, 75% tree cover

description: This raster contains the median modelled probability of forest for the year 2000 and computed using a tree cover threshold of 75%.
DOI: 10.5061/dryad.r87p0/8
title: Forest and savanna distribution for 1900, 75% tree cover

description: This raster contains the modelled distribution of forest (coded 1) and savanna (coded 0) for the year 1900, and using a probability threshold of 0.5 and for 75% tree cover threshold.