cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.dd00m/3
title: D06 fat tissue segmentation

description: Eared grebe (D-06) downed in Dugway, UT, during Spring migration towards Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dd00m/4
title: CC43 fat tissue segmentation

description: Eared grebe (CC-43) downed in Cedar City, UT, during Fall migration leaving Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.df878/1
title: Günther et al. RSOS-160503_Microsatellite_Genotypes

description: Dataset of 510 individual bats with allele lengths at ten different microsatellite loci. Each row represents an individual bat with its ID, age at capture, sex, colony of capture, date of capture, and both the lengths of both alleles at the ten different microsatellite loci. Details on each loci (Rn01, Rn04, Rn09, Rn10, Rn11, Rn13, Rn16, Rn18, Sb84, Sb85) can be found in the supplementary material of the manuscript RSOS-160503 by Günther et al. 2016 (Royal Society Open Science).
DOI: 10.5061/dryad.fb1s4/1
title: Zimmermann et al Proc B 2017 - Behavioural measures

description: Latencies and frequencies of behavioural measures.
DOI: 10.5061/dryad.fb1s4/2
title: Zimmermann et al Proc B 2017 - Hormones, body weights, and paternities

description: Plasma concentrations of cortisol and testosterone, body weights, and number of sired litters and offspring.
DOI: 10.5061/dryad.g3pj8/1
title: All Data_Submition

description: All the data appearing in the paper "Click or Skip: The Role Of Experience In Easy-Click Checking Decisions"
DOI: 10.5061/dryad.h7db0/1
title: Usatdata

description: Humpback whale microsatellite data set (9 loci)
DOI: 10.5061/dryad.j315n/19
title: Data for differentiation based method PCA, Dxy, Da

description: - plink format files  AssembliesGenowine.raw and .map for PCA performed with adegenet   - Vcf phased data files for each chromosome of flor and wine population - R script utilising on PopGenome performing all analysis of Theta, pi, Dxy (Da = Dxy – (Piwine+piflor)/2 ) on each chromosome datafile).
DOI: 10.5061/dryad.j315n/20
title: DT FineStructure Flor Wine Champagne

description: These are the data files used for the FineStructure analysis for the hybrid nature of strains of the Champagne group (Figure S1)
DOI: 10.5061/dryad.j315n/21
title: Data for Linkage desequilibrium analysis (figureS3)

description: ped and map files  for Flor  and wine populations. Files are prepared from phased vcf file . Data used with plink  with options --ld-window 1000
  --ld-window-kb 50
  --ld-window-r2 0
  --r2
DOI: 10.5061/dryad.j315n/22
title: Data for Estimation of recombination rates  (Figure S4)

description: This data has been used for the genome scan of recombination rate (Figure S4) using a model with hotspot as inplemented in the "INTERVAL" module of LDHAT package. A global estimate of recombination rate has also been estimated for flor strain using PAIRWISE  with the module "PAIRWISE"  of the same package.
DOI: 10.5061/dryad.j315n/23
title: Data of figure4: Biofilm images used for the evaluation of the impact of each wine and flor allele on biofilm formation

description: The compressed archive contains the photos and the notice indicating for image its organization.
DOI: 10.5061/dryad.j315n/24
title: de-novo draft assemblies

description: This is a gzip/tar compressed data archive containing the draft contig de-novo assemblies generated in this study.  This data is used for  phylogenic trees and genes sequence alignments (Figures S2, S6, S8).
DOI: 10.5061/dryad.jv75p/1
title: Bringloe et al.-Trichoptera density data site*taxon

description: This file contains site*taxon density data for Trichoptera sampled in sub-Arctic Churchill (Canada) and temperate Pennsylvania. Included is a sheet on environmental information from the time of sampling. Note species names may have since been revised, but BIN numbers are included so users can check for updates in the Barcode of Life Datasystems (BOLD). The BOLD project doi where specimen and sequence information is also available is dx.doi.org/10.5883/DS-LTLCP.
DOI: 10.5061/dryad.jv75p/2
title: Bringloe et al. Master Literature Search Additive Partitioning

description: This excel file includes 114 articles reviewed for difficulties identifying species when morphology is used in diversity component studies. Publication information, categorizations and focal taxa information are included.
DOI: 10.5061/dryad.kd58f/1
title: SDS_UK10K_n3195_release_Sep_19_2016.tab

description: Singleton Density Score (SDS) computed for autosomal SNPs with let least 5% minor allele frequency over a set of 3,195 individuals from the UK10K project. This is a gzipped tab-delimited file and the first row is a column header. Columns correspond to: (1) chromosome; (2) genomic position (hg19); (3) SNP id (rsid); (4) ancestral allele; (5) derived allele; (6) derived allele frequency; (7) SDS. See our manuscript for further description of the SDS method as well as the data quality control and SNP filtering.
DOI: 10.5061/dryad.ks824/1
title: Trait Matrices

description: trait categorisation for iris colour, nesting and parental care. Presence =1, absence = 0.
DOI: 10.5061/dryad.ks824/2
title: Iris colour phylogenetic tree

description: Phylogenetic tree used for iris colour evolution
DOI: 10.5061/dryad.ks824/3
title: Nesting phylogenetic tree

description: Phylogenetic tree used for nesting evolution
DOI: 10.5061/dryad.ks824/4
title: Iris colour and nesting behaviour tree

description: Phylogenetic tree used for correlated evolution between iris colour and nesting behaviour
DOI: 10.5061/dryad.md880/1
title: WolbVSMeso-March16-DryadFile
DOI: 10.5061/dryad.mt2tk/1
title: Data for figures and simulation code

description: The following are found in this folder: (1) code for the one locus model, (2) code for the two locus model, (3) data for the figures of the main text and supplement, (4) Mathematica file with the analytical portion. There is also a document with a description of the data.
DOI: 10.5061/dryad.nv835/1
title: BEHECO-2016-0276_main_data
DOI: 10.5061/dryad.nv835/2
title: BEHECO-2016-0276_diet_growth_rate
DOI: 10.5061/dryad.rd47f/1
title: Cuthill_et_al_PNAS_data

description: Raw data file
DOI: 10.5061/dryad.v3824/1
title: Dataset S1

description: Source information, trait data, and environmental metrics used in this study.
DOI: 10.5061/dryad.057b7/4
title: Table of counts at the gene level

description: Table of counts at the gene level generated with RSEM and used for calling Differentially exrpressed genes with EdgeR. Towhee samples removed.
DOI: 10.5061/dryad.11527/1
title: Naeem_etal_RSPB-2015-3005.R2

description: Plant relative abundance and total cover data associated with the manuscript "Biodiversity as a multidimensional construct:  A review, framework, and case study of herbivory’s impact on plant biodiversity".
DOI: 10.5061/dryad.16r35/1
title: New Zealand Rejection Data

description: Raw data for New Zealand experiments, status of eggs in clutches.
DOI: 10.5061/dryad.16r35/2
title: US Egg Data

description: Raw data from citizen science egg rejection project. Identifying info for individual participants omitted.
DOI: 10.5061/dryad.1719f/1
title: ped SNP file for polar bears of the Hudson Bay region

description: The following file (.ped) contains SNP data (3341) for 414 individual bears sampled in the Hudson Bay region. Each bear has a unique bear ID (see second column) and is also categorized by the subpopulation in which it is designated to (see column one). Columns three and four indicate the ancestry of the individual (parents) and are followed by the individual's sex (coded:  1 = male, 2 =female). The remaining columns are the individual's genotype.
DOI: 10.5061/dryad.2fj55/1
title: flatfish_timetree_BMCeb

description: Fossil calibrated time-tree from BEAST dating analyses.
DOI: 10.5061/dryad.2fj55/2
title: UCE alignments, 100% complete for 55 taxa

description: UCE alignment files for 100% complete alignments (i.e. 97 UCE loci with each alignment containing all 55 taxa). Apologies for typos in some taxa names.
DOI: 10.5061/dryad.2n5h6/1
title: Leo et al_JH_Electronic Supplementary Material
DOI: 10.5061/dryad.320h5/5
title: Table S3

description: Table S3 CVA results of valve shape variation in the ventral valves of M. burgessensis. In the results of the CVA, significant p values are indicated by light blue boxes.
DOI: 10.5061/dryad.320h5/6
title: Table S4

description: Table S3 CVA results of valve shape variation in the dorsal valves of M. burgessensis. In the results of the CVA, significant p values are indicated by light blue boxes.
DOI: 10.5061/dryad.38c5g/2
title: Phenotypic data

description: Contains information on phenotypic traits for all individuals used in this study.
DOI: 10.5061/dryad.3h4m5.1
title: Data from: Multiple morphological clocks and total-evidence tip-dating in mammals
DOI: 10.5061/dryad.4g6h8/1
title: Gut passage time of Daphnia pulicaria

description: Gut passage time of Daphnia pulicaria was determined by testing 8 feeding times.
DOI: 10.5061/dryad.4h1n1/1
title: List of avian body data

description: List of avian body data (n = 109, 58 species).
"footnote"General ecological divisions are after Hackett et al. (2012). Reference # 1: Greenwalt (1962); 2: Witton and Habib (2010); 3: Living bodies data obtained in Niigata Prefectural Aicho Center for this study;4: Wing area and wing span obtained from spread-wing specimens (Larus crassirostris YIO-63199) kept in the Yamashina Institute for Ornithology for this study, and its body weight data were obtained from Tanaka (2015).
DOI: 10.5061/dryad.4rv4v.2
title: Data from: How are the phenologies of ripening and seed release affected by species' ecology and evolution?
DOI: 10.5061/dryad.4rv4v.2/1.2
title: Supplementary material Appendix_1

description: Appendix 1 Table A 1: Topographical characterisation of study sites and weather stations of the German Meteorological Service.
DOI: 10.5061/dryad.4rv4v.2/2.2
title: Supplementary material Appendix_2

description: Appendix 2 Table A 2: Definition of phenological monitoring based on the stage of flower and seed development.
DOI: 10.5061/dryad.4rv4v.2/3.2
title: Supplementary material Appendix_3

description: Appendix 3 Table A 3: Mean weight of the morphological structures germinule, diaspore and flower head.
DOI: 10.5061/dryad.4rv4v.2/4.2
title: Supplementary material Appendix_4

description: Appendix 4 Table A 4: Seed terminal velocity (Vterm) and diaspore morphology of species obtained from Hintze et al. (2013).
DOI: 10.5061/dryad.4rv4v.2/5.2
title: Supplementary material Appendix_5

description: Appendix 5 Table A 5: Species number for each dispersal mode, differentiated by the life form of the species.
DOI: 10.5061/dryad.4rv4v.2/6.2
title: Supplementary material Appendix_6

description: Appendix 6 Table A6: Calculated mean values for date, duration and growing degree days for species’ phenological phases flowering, ripening and seed release.
DOI: 10.5061/dryad.4rv4v.2/7.2
title: Supplementary material Appendix_7

description: Appendix 7 Figure A 1: Mean temperature, relative humidity, and precipitation during periods of diaspore release differentiated by the dispersal mode of the species.
DOI: 10.5061/dryad.5n00k/1
title: FieldLabData_GryseelsPLoSPathogens2016

description: Field information, arenavirus screening data and GenBank accession numbers of Mastomys natalensis as described in the manuscript "When viruses don't go viral: the importance of host phylogeographic structure in the spatial spread of arenaviruses".
DOI: 10.5061/dryad.5n00k/2
title: Microsatellite genotypes_GryseelsPLoSPathogens2016

description: Genotypes of 15 microsatellite loci of 760 Mastomys natalensis individuals from Tanzania.
DOI: 10.5061/dryad.5n00k/3
title: Landscape cost values for GIS and Circuitscape analyses_GryseelsPLoSPathogens2016

description: Cost values of land use elements that occurred in our study area in terms of Mastomys natalensis habitat quality.
DOI: 10.5061/dryad.5n00k/4
title: MrBayes input files

description: Input files for the software MrBayes of arenavirus partial L, NP and GPC sequences, containing the used alignments and parameter settings to infer the phylogenetic trees displayed in the manuscript.
DOI: 10.5061/dryad.6qp18
title: Data from: Evolutionary dynamics of substrate switches and specialization patterns in wood-decay fungi
DOI: 10.5061/dryad.6qp18/2
title: Supplement_data1

description: Data table with decay mode and host frequencies for studies species.
DOI: 10.5061/dryad.6qp18/3
title: Supplement_data2

description: Community matrix with fungal species as rows and host plant species as columns.
DOI: 10.5061/dryad.6qp18/4
title: supermatrix_9647x 5274
DOI: 10.5061/dryad.737gk/1
title: ECOG-02881.R1

description: Appendix 6 - R code and data for case studies and simulations (as presented in Boxes 1-4 in manuscript).
DOI: 10.5061/dryad.7c0q8/1
title: King penguin filtered SNP dataset
DOI: 10.5061/dryad.7c0q8/2
title: BayeScan_output_king_penguins

description: The output from BayeScan saved as an Excel doc. BayeScan was run on the final dataset of 5154 king penguin SNPs with the prior odds of neutrality set to 5.The columns are in the same order as the standard "yourprefix_fst.txt" output file from BayeScan, but an additional column has been added which maps the input file locus index to the locus index used in the VCF.
DOI: 10.5061/dryad.7c0q8/3
title: Python script for filtering .SAM formatted mapping files aligned with BWA mem

description: The filter.py script works on sorted .SAM formatted mapping files from BWA mem alignment. For every pair of mapped forward and reverse reads, it parses out the CIGAR field (column 6 of the SAM file) and the MD tag to calculate the number of insertions, deletions, and mismatches. If a pair of reads have mismatches less than or equal to five and insertion/deletions less than or equal to two, then the pair is kept and printed to linux standard output. SAM header lines are ignored by the parser but also printed to standard output for compatible down-stream analysis.
DOI: 10.5061/dryad.7vt36/1
title: Young_et_al_Data

description: Gridded tree mortality data based on annual aerial surveys conducted from 2009 to 2015, along with environmental variables used to explain mortality patterns. The data file contains one row per unique 3.5 km grid cell & year combination. The data frame covers all grid cells within the state of California where at least one Aerial Detection Survey (ADS) flight was taken between 2009 and 2015, so each grid cell position has between 1 and 7 years of data (reflected as 1 to 7 rows in the data file per grid cell position). The main response variables are mort.bin (presence of any mortality) and mort.tph (number of dead trees/ha reported for the given grid cell & year combination). The main predictor variables are a set of climatic and forest structure variables at the same spatial scale, as described in the primary publication. This file is an Excel workbook with two worksheets: the first worksheet describes the variables, and the second worksheet contains the data. This data file was created by compiling and processing various publicly-available data sources into a standardized grid; the R code used for this is included in this repository as "Young_et_al_Data_preparation.R". The code used for statistical analyses and plots based on this data file ("Young_et_al_Analysis.R") is included as well.
DOI: 10.5061/dryad.7vt36/2
title: Young_et_al_Data_preparation

description: Code for generating the data file (also contained in this repository) by compiling and processing publicly-available data sources.
DOI: 10.5061/dryad.7vt36/3
title: Young_et_al_Analysis

description: Code for performing statistical analyses and producing plots based on the gridded mortality data (also included in this repository).
DOI: 10.5061/dryad.8h03j/1
title: TRICHACHNE Lo Medico

description: This are the combined matrix data. It contains:
*Continuous characters
* Morphology characters 
* DNA Matrix
DOI: 10.5061/dryad.c8234/1
title: FigureA1

description: Locations of 42 Sacramento Valley red fox (Vulpes vulpes patwin) den sites (blackcircles) and 28 road kills (red circles) in reference to 4 land-cover types used in Maxentmodeling, Sacramento Valley, California, 2007–2009.
DOI: 10.5061/dryad.c8234/2
title: SacksTableA1

description: Locations and land-cover type coding of 42 Sacramento Valley red fox den sites used in Maxent modeling
DOI: 10.5061/dryad.c8234/3
title: SacksTableA2

description: Locations of 28 native Sacramento Valley red fox road kills
DOI: 10.5061/dryad.c8234/4
title: FigureA2

description: Locations of 70 Sacramento Valley red fox (Vulpes vulpes patwin) den sites and road kills (black circles) in reference to geographic landmarks and two Maxent model predicting distribution in the Sacramento Valley, California: (A) the full model, based on vegetation type, distance to grasslands, distance to development, and (B) a 2-variable model, based on vegetation type and distance to grasslands (i.e., excluding distance to development).  All data shown were collected during 2007–2009.
DOI: 10.5061/dryad.c9d3j/4
title: Supporting Information F2 Data

description: Expanded data presented in Supporting Information F is available here in text file format:  “SIF2.Data.txt” (Supporting Information F2).
DOI: 10.5061/dryad.c9d3j/5
title: Flow Cytometry Data

description: Files containing all raw flow cytometry data for individual adult C. rubecula are in .fcs format.  For individual fcs files the middle value of each file name references an individual reported in “Weis et al. Evolution Cotesia.xlsx” above.  For instance, “samples_C25_001.fcs” contains the data for individual C25 on the field pupae worksheet, “samples_N4a3_020.fcs” contains data for individual N4.a.3 on the cross pupae worksheet.
DOI: 10.5061/dryad.c9d3j/6
title: Figure 2 Simulation Code

description: Note that this code is set for the expanded parameter space explored in Supplementary Information F.  Also note dependencies in the R code available through the R CRAN; doParallel, foreach, and doRNG.
DOI: 10.5061/dryad.c9d3j/7
title: Figure 3 Simulation Code

description: Note that this code is set for the expanded parameter space explored in Supplementary Information F.  Also note dependencies in the R code available through the R CRAN; doParallel, foreach, and doRNG.
DOI: 10.5061/dryad.dc4jp/1
title: Cuticular hydrocarbon and genetic data

description: The individual data show diversity indices, percentages of each cuticular hydrocarbon, and HL data of individual Hypoponera opacior workers as used in this study. The colony-level data show average HL per colony (colony HL), relatedness between nestmates, and Bray-Curtis distances for the different hydrocarbon classes.
DOI: 10.5061/dryad.dd00m/10
title: D13 fat tissue segmentation

description: Eared grebe (D-13) downed in Dugway, UT, during Spring migration towards Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dd00m/11
title: D15 fat tissue segmentation

description: Eared grebe (D-15) downed in Dugway, UT, during Spring migration towards Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dd00m/12
title: D16 fat tissue segmentation

description: Eared grebe (D-16) downed in Dugway, UT, during Spring migration towards Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dd00m/5
title: CC53 fat tissue segmentation

description: Eared grebe (CC-53) downed in Cedar City, UT, during Fall migration leaving Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dd00m/6
title: CC56 fat tissue segmentation

description: Eared grebe (CC-56) downed in Cedar City, UT, during Fall migration leaving Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dd00m/7
title: CC67 fat tissue segmentation

description: Eared grebe (CC-67) downed in Cedar City, UT, during Fall migration leaving Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dd00m/8
title: CC74 fat tissue segmentation

description: Eared grebe (CC-74) downed in Cedar City UT, during Fall migration leaving Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dd00m/9
title: D05 fat tissue segmentation

description: Eared grebe (D-05) downed in Dugway, UT, during Spring migration towards Great Salt Lake. After segmentation in Mimics, jpg files were exported with fat tissue highlighted. Images allowed landmark identification and slice range for each ROI (region of interest) - chest, thorax and abdomen. Also, a txt file with fat area measurement for each slice was generated. Depot fat measurement was calculated by matching ROI slice range and fat values.
DOI: 10.5061/dryad.dg715/1
title: Climate and leaf temperature data

description: This Excel file contains climate and leaf temperature data collected in the field at two principal study sites representative of two different habitats, relatively mature (&gt; 80 yrs) and relatively young (&lt; 50 yrs) tropical dry forest, in the Area de Conservación Guanacaste, Costa Rica. These data were collected during the same time period at the same sites and on the same trees as the caterpillar performance and leaf trait data. See article for further details.