cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.9jh21/7
title: Data of Experiment 1

description: This is the raw data of Experiment1.  Definition of column headings:
-	Colony no.: identification number of the mother colonies 
-	Worker no.: identification number of the workers
-	Eclosion date: eclosion date of the workers
-	Death date: date at which workers died
-	Longevity: age of the workers at death in days
-	Worker group: 3 groups of workers, 1 (workers that eclosed pre-queen removal/death and died pre-queen removal/death), 2 (workers that both eclosed and died post-queen removal/death) and 3 (workers that eclosed pre-queen removal/death and died post-queen removal/death)
-	Body size: length of the radial cell in a forewing (mm)
-	Longest oocyte: length of the longest visible oocyte (mm)
DOI: 10.5061/dryad.b744g/1
title: Appendix S1

description: Methods summary and character-taxon matrix used for cladistic analysis (nexus format). File readable using a text editor.
DOI: 10.5061/dryad.b744g/2
title: Appendix S2

description: Character-taxon matrix and settings used for cladistic analysis (BEAST 2 xml format). File readable using a text editor.
DOI: 10.5061/dryad.b744g/3
title: Appendix S3

description: Ankalodous sericus, ELI-Erjie-009; light microscopy (A) and back-scatter electron imagery (B, C).  (A) Entire specimen, with box indicating field shown in (B).  (B) Detail of grasping array, with box indicating field shown in (C).  (C) Detail of spines, showing framboidal pyritic infills of internal cavities.
DOI: 10.5061/dryad.b744g/4
title: AppendixS4

description: Raman spectroscopy of five specimens of Ankalodous sericus, showing spectograms of spines (A-C, E), putative plate (D) in locations of yellow dots and adjacent sediment (E) in locations with white squares.  Raman spectroscopy of the spines follows a two-peak model (respective values of 1382.12, 1611.68), consistent with the presence of organic carbon.
DOI: 10.5061/dryad.c6g7d/1
title: Experimental dispersal data

description: Data were collected in an experiment in which notonectids were placed in experimental tanks. Dispersal was observed over two days. Column info: Sex ratio treatment: Equal = equal number of males and females, FB = female biased sex ratio, MB = male biased sex ratio. Sex: M = male, F = female. Dead: NA = did not die over course of experiment, dead_dayx = died on day x of experiment. Dispersal status: 0 = did not disperse over course of experiment, 1 = dispersed. Time to dispersal (days) = day of experiment in which an individual dispersed (if dispersal status = 1).
DOI: 10.5061/dryad.d0cp4/1
title: timing1_descriptive

description: A descriptive dataset with field data used to study timing of arrival and laying of pied flycatchers, Ficedula hypoleuca, in relation to their date of hatching (at birth), as studied in a breeding population in Drenthe (The Netherlands). 
This includes chicks born in 2007-2013 that did not perceive experimental delay treatments, and that arrived and/or laid their eggs at least once in 2010-2014.
DOI: 10.5061/dryad.d0cp4/2
title: timing2_experimental

description: An experimental dataset with field data used to study timing of arrival and laying of pied flycatchers, Ficedula hypoleuca, in relation to their date of hatching (at birth), as studied in a breeding population in Drenthe (The Netherlands). 
This includes chicks born in 2009-2011 that were part of a delayed hatching experiment (i.e. a control or delay treatment), and that arrived and/or laid their eggs at least once in 2010-2014.
DOI: 10.5061/dryad.d0cp4/3
title: survival_experimental

description: A dataset with pied flycatcher chicks born in 2009-2011 within the delayed hatching experiment (as control or delay) in relation to their treatment, body weight and 'survival'.
DOI: 10.5061/dryad.d0cp4/4
title: README
DOI: 10.5061/dryad.d76d1/10
title: Library 3 fastq file read 2
DOI: 10.5061/dryad.d76d1/5
title: Library 1 fastq file read 1
DOI: 10.5061/dryad.d76d1/6
title: Library 1 fastq file read 2
DOI: 10.5061/dryad.d76d1/7
title: Library 2 fastq file read 1
DOI: 10.5061/dryad.d76d1/8
title: Library 2 fastq file read 2
DOI: 10.5061/dryad.d76d1/9
title: Library 3 fastq file read 1
DOI: 10.5061/dryad.g4n5q/3
title: Code_Chadoeuf_et_al_MEE

description: R code for estimating unbiased dispersal kernels
DOI: 10.5061/dryad.g4n5q/4
title: LatLongToXY

description: R code for transforming geographical coordinates (from degrees decimals WGS84 to a xy system specific to France)
DOI: 10.5061/dryad.g4n5q/5
title: MARKING_ALL

description: Datafile containing geographical coordinates for all marked harriers
DOI: 10.5061/dryad.h297n/3
title: Junco Data File for R

description: Dark-eyed Junco (Junco hyemalis) data file used for statistical analysis in R Statistical Software.
DOI: 10.5061/dryad.h297n/4
title: R Code for Behavioral Ecology MS

description: R code used with provided .csv files for both species. Includes all models used in the MS.
DOI: 10.5061/dryad.h4p2b/1
title: EPG Data

description: Data of electrical penetration graph results used in the behavioural response of aphids to plants.
DOI: 10.5061/dryad.h4p2b/2
title: Fecundity data

description: Aphid fecundity data used in the validation of EPG results.
DOI: 10.5061/dryad.h4p2b/3
title: Metabolomic data_Nonpolar phase

description: Metabolic results non-polar phase compounds of plant esxtracts, as measured with MALI-TOF.
DOI: 10.5061/dryad.j4g98/2
title: summary_statistics

description: This file contains the details about the number of raw reads and the mapping statistics such as uniquely mapped reads, mapped to multiple loci and unmapped reads for all the samples.
DOI: 10.5061/dryad.kn58h/1
title: Non-experimental data

description: Data for calculating repeatabilities of exploration behaviour and problem solving performance in isolation, as well as stress analyses.
DOI: 10.5061/dryad.kn58h/2
title: Experimental Data

description: Data for all experimental analyses
DOI: 10.5061/dryad.md416/1
title: Rcpp model code and associated files

description: The archive includes the Rcpp code to run the Stochastic Dynamic Programming model, forward Monte Carlo simulations and sensitivity analysis. The data files required to run the model are also attached. These include the coordinates of model locations (file locs_100 km), the number of hours available to feed at different locations over time (file twilight_times_byLoc_forModel) and the upwelling index per location over time (file UpwellingIndex1). The details of how these data were generated are reported in the manuscript.
DOI: 10.5061/dryad.pj59h/1
title: Population-scale barnacle goose abundance data

description: Data collected on the abundance of Greenland barnacle geese (Branta leucopsis) on Islay and associated environmental conditions, between 1987 and 2016.
DOI: 10.5061/dryad.pj59h/2
title: Farm-scale barnacle goose abundance and occurrence data

description: Data collected on the farm-scale abundance and occurrence of Greenland barnacle geese (Branta leucopsis) on Islay and associated environmental conditions, between 1998 and 2016.
DOI: 10.5061/dryad.rf7g5.1/27.1
title: Breinholt_et_al_acrossLep_full_assemblies_all_loci

description: Fasta formatted sequence file containing sequences that pass pipeline step 1-6 for all loci and taxa in dataset 1-3. This file can be split using the split.py to separate into fasta files of individual loci.
DOI: 10.5061/dryad.rf7g5.1/28.1
title: Breinholt_et_al_shallow_full_assemblies_all_loci

description: Fasta formatted sequence file containing sequences that pass pipeline step 1-6 for all loci and taxa in dataset 4-6. This file can be split using the split.py to separate into fasta files of individual loci.
DOI: 10.5061/dryad.rf7g5.1/29.1
title: Breinholt_et_al_allcodonpostion123_acrossLep

description: Nexus file containing codon position 1 & 2  & 3 for 557 loci and 75 taxa used to make dataset 1-3. See taxa_list.txt for species names of each taxon, this is a nucleotide nexus file with a CHARSET that defines each gene that starts with codon position 1. For further information see Breinholt et al. (2017) and Breinholt_et_al_Supplementary_File_1_S1-S11.xlsx in this Dryad package for more details.
DOI: 10.5061/dryad.rf7g5.1/30.1
title: Breinholt_et_al_aminoacid_DS1

description: Nexus file containing codon position 1 & 2 for 557 loci and 23 taxa. See taxa_list.txt for species names of each taxon, this is a nucleotide nexus file with a CHARSET that defines each gene that starts with codon position 1. Synonymous signal was removed using degen v1.4 Perl script (http://www.phylotools.com), and the third codon has been removed. Loci names correspond to Loci numbers in the Lep1 enrichment kit included in this DRAYD package. For further information see Breinholt et al. (2017) and Breinholt_et_al_Supplementary_File_1_S1-S11.xlsx in this Dryad package for more details.
DOI: 10.5061/dryad.rf7g5.1/34.1
title: Breinholt_et_al_degen12_DS3

description: Dataset 3 (acrossLEP_AHE+ALLtrans ). Nexus file consists of both AHE and the transcriptomic data of Kawahara and Breinholt 2015. The file contains codon position 1 & 2 for 2948 loci and 76 taxa. See taxa_list.txt for species names of each taxon, this is a nucleotide nexus file with a CHARSET that defines each gene that starts with codon position 1. Synonymous signal was removed using degen v1.4 Perl script (http://www.phylotools.com), and the third codon has been removed. Loci names correspond to Loci numbers in the Lep1 enrichment kit included in this DRAYD package. For further information see Breinholt et al. (2017) and Breinholt_et_al_Supplementary_File_1_S1-S11.xlsx in this Dryad package for more details.
DOI: 10.5061/dryad.rf7g5.1/36.1
title: Breinholt_et_al_degen12_DS2

description: Dataset 2 (acrossLEP_AHE+PARTtrans). Nexus file containing codon position 1 & 2 for 557 loci and 75 taxa. See taxa_list.txt for species names of each taxon, this is a nucleotide nexus file with a CHARSET that defines each gene that starts with codon position 1. Synonymous signal was removed using degen v1.4 Perl script (http://www.phylotools.com), and the third codon has been removed. Loci names correspond to Loci numbers in the Lep1 enrichment kit included in this DRAYD package. For further information see Breinholt et al. (2017) and Breinholt_et_al_Supplementary_File_1_S1-S11.xlsx in this Dryad package for more details.
DOI: 10.5061/dryad.rf7g5.1/37.1
title: Breinholt_et_al_degen12_DS1

description: Dataset 1 (acrossLEP_AHE). Nexus file containing codon position 1 & 2 for 557 loci and 23 taxa. See taxa_list.txt for species names of each taxon, this is a nucleotide nexus file with a CHARSET that defines each gene that starts with codon position 1. Synonymous signal was removed using degen v1.4 Perl script (http://www.phylotools.com), and the third codon has been removed. Loci names correspond to Loci numbers in the Lep1 enrichment kit included in this DRAYD package. For further information see Breinholt et al. (2017) and Breinholt_et_al_Supplementary_File_1_S1-S11.xlsx in this Dryad package for more details.
DOI: 10.5061/dryad.rm317/1
title: Survival rate, Activity Index, brood cells, nests, female offspring, Temp

description: Survival rate, Activity Index, Temp. until day 6 and no. of brood cells, nests and female offspring of three different spring-emerging bee species (O. cornuta, O. bicornis, O. brevicornis) after perfect synchronization and desynchronization with their host plants.
DOI: 10.5061/dryad.rm317/2
title: Activity Index (early vs. late activity)

description: Activity Index (divided into early and late activity) of three different spring-emerging bee species (O. cornuta, O. bicornis, O. brevicornis) after perfect synchronization and desynchronization with their host plants.
DOI: 10.5061/dryad.10gm6/1
title: cuticular hydrocarbon profiles of Philanthinae wasp females

description: cuticular hydrocarbon (CHC) profiles of 10 Philanthinae species' female wasps, analyzed by GC-MS, substances identified by retention index and diagnostic ions, substance amounts given as percentage within an individuals complete CHC profile.
DOI: 10.5061/dryad.23j6t/3
title: Supplementary data file 2

description: Tadpole body shape data for 166 species. Landmarks and semilandmarks for characterizing the body shape of tadpoles. 1
Centre of the eye
2
Centre of the external nares
3
Point where the upper labium contacts the head/body
4
Point where the lower labium contacts the head/body
5
Intersection of the head/body and tail on the ventral side, anterior to the vent
6
Intersection of the ventral edge if the tail muscle and the head/body
7
Intersection of the dorsal edge if the tail muscle and the head/body
8
Tip of the tail
9
Point on the dorsal fin closest to landmark 7 (superficially denotes the intersection of the head/body and tail regions)
10 to 17
Equally-spaced semilandmarks marking the curve of the dorsal aspect of the head/body when viewed laterally
18 to 27
Equally-spaced semilandmarks marking the curve of the dorsal aspect of the tail fin when viewed laterally
28 to 37
Equally-spaced semilandmarks marking the curve of the ventral aspect of the tail fin when viewed laterally
38-45
Equally-spaced semilandmarks marking the curve of the ventral aspect of the head/body when viewed laterally
46 to 55
Equally-spaced semilandmarks marking the curve of the notochord
DOI: 10.5061/dryad.23j6t/4
title: Supplementary data file 3

description: Tadpole body size data. Centroid size of tadpoles.
DOI: 10.5061/dryad.23j6t/5
title: Supplementary data file 4

description: Phylogenetic tree of 166 species
DOI: 10.5061/dryad.23j6t/6
title: Supplementary data file 5

description: Classifier file with meta information for all 166 species in this study
DOI: 10.5061/dryad.303hh/1
title: simulation codes

description: Simulation codes written in C++. These are used for creating data shown in the manuscript.
DOI: 10.5061/dryad.34fv6/1
title: Genotypes Natterjack Toad

description: The data file contains two spread sheets. The first shows the total dataset, with in the first column the sample codes, in the second the spawn string code when individuals were sampled from the same spawn string, in the third the name of the subpopulation, in the fourth the site number, and in the fith and sixth column the X and Y coordinates, respectively (Lambert-72 coordinates). The next 11 columns represent the different microsatellite markers. Alleles are separated by a forward slash. Missing genotypes are indicated with 'NA'. The second spread sheet contains the dataset without full siblings except one per family, that was used for the landscape genetic analyses.
DOI: 10.5061/dryad.3rt12/1
title: ESM1.Lab mortality and FAO protein reference.rsos
DOI: 10.5061/dryad.3rt12/2
title: ESM2.Calculation formulas and experimental procedures.rsos
DOI: 10.5061/dryad.4kd16/1
title: Group-level Data

description: This data was used for the analysis of global group patterns
DOI: 10.5061/dryad.4kd16/2
title: Position and distance to centroid data

description: This data was used for the analysis of spatial positioning of the individuals within shoals
DOI: 10.5061/dryad.4kd16/3
title: FocaltoNearNeighbourDifferences

description: This file was used for the analysis of the relationship between topological distance and the size, speed and orientation of individuals within groups
DOI: 10.5061/dryad.52v62/1
title: Castilleja_tenuis_1K_CAP3

description: Castilleja tenuis low-coverage genome assembly using CAP3. Culled to include contigs of 1kb or larger.
DOI: 10.5061/dryad.52v62/2
title: Castilleja_foliolosa_1K_CAP3

description: Castilleja foliolosa low-coverage genome assembly using CAP3. Culled to include contigs of 1kb or larger.
DOI: 10.5061/dryad.52v62/3
title: Castilleja_cusickii_1K_CAP3

description: Castilleja cusickii low-coverage genome assembly using CAP3. Culled to include contigs of 1kb or larger.
DOI: 10.5061/dryad.52v62/4
title: culled_assemblies.R

description: annotated R script used for culling assemblies based on contig size.
DOI: 10.5061/dryad.52v62/5
title: fasta_from_tblastx_output.notes

description: Notes on generating fasta files of identified hits from tblastx output
DOI: 10.5061/dryad.52v62/6
title: fasta-to-tabular

description: perl script (by Paul Blischak) that puts a fasta file into tabular format for ease of searching
DOI: 10.5061/dryad.52v62/7
title: Cten.ppr.hits

description: Identified PPR hits for Castilleja tenuis in fasta format.
DOI: 10.5061/dryad.532j0/1
title: Individual reproductive performance and migratory strategy data

description: These breeding data are part of the long-term monitoring of the European shag population on the Isle of May by the Centre for Ecology & Hydrology. The winter colour-ring resighting data were collected by staff and volunteers across the UK.
DOI: 10.5061/dryad.532j0/2
title: Pair reproductive performance and migratory strategy

description: The breeding data were collected as part of a long-term monitoring study on the Isle of May by the Centre for Ecology & Hydrology. The winter colour-ring resighting data were collected by staff and volunteers across the UK.
DOI: 10.5061/dryad.5595b/1
title: Data from "Host nest site choice depends on risk of cuckoo parasitism in magpie hosts"

description: Data to analyze the parasitism risk proximity of induced cuckoo risk of parasitism for magpie nests during the experimental year 2013 and the individual magpie site fidelity of magpies between consecutive years 2012-2013.
DOI: 10.5061/dryad.55bp8/11
title: mapped_pv_all_sources_2005

description: The potential vorticity calculated from the vertical gradient of the neutral density (ie. PV = f/rho_0 d(gamma)/dz) for the year 2005 (with annual and semi-annual harmonics) from 75S to 30S.
DOI: 10.5061/dryad.55bp8/2
title: mapped_gamma_all_sources_2006

description: Neutral Density (Jackett &  McDougall, 1997) for the year 2006 (with annual and semi-annual harmonics) from 75S to 30S.
DOI: 10.5061/dryad.55bp8/3
title: mapped_gamma_all_sources_2007

description: Neutral Density (Jackett &  McDougall, 1997) for the year 2007 (with annual and semi-annual harmonics) from 75S to 30S.
DOI: 10.5061/dryad.55bp8/4
title: mapped_gamma_all_sources_2008

description: Neutral Density (Jackett &  McDougall, 1997) for the year 2008 (with annual and semi-annual harmonics) from 75S to 30S.
DOI: 10.5061/dryad.55bp8/5
title: mapped_gamma_all_sources_2009

description: Neutral Density (Jackett &  McDougall, 1997) for the year 2009 (with annual and semi-annual harmonics) from 75S to 30S.
DOI: 10.5061/dryad.55bp8/6
title: mapped_gamma_all_sources_2010

description: Neutral Density (Jackett &  McDougall, 1997) for the year 2010 (with annual and semi-annual harmonics) from 75S to 30S.
DOI: 10.5061/dryad.55bp8/7
title: mapped_gamma_all_sources_2011

description: Neutral Density (Jackett &  McDougall, 1997) for the year 2010 (with annual and semi-annual harmonics) from 75S to 30S.
DOI: 10.5061/dryad.55bp8/8
title: mapped_gamma_all_sources_2012

description: Neutral Density (Jackett &  McDougall, 1997) for the year 2012 (with annual and semi-annual harmonics) from 75S to 30S.
DOI: 10.5061/dryad.5n481/1
title: WinRAR file for clusters 1-6 of Shangsi

description: Six zip files
DOI: 10.5061/dryad.5n481/2
title: Fig.3-Cluster 1-video of 3d
DOI: 10.5061/dryad.5n481/3
title: Fig.4-Cluster 2-video of 3d
DOI: 10.5061/dryad.5n481/4
title: Fig.5-Cluster 3-video of 3d
DOI: 10.5061/dryad.656jr/1
title: GRmicrosatellite_bodysize_location
DOI: 10.5061/dryad.66gd7/1
title: Supplementary Material for RSC Open Science 03.1.2017
DOI: 10.5061/dryad.66gd7/2
title: CrystalStructure
DOI: 10.5061/dryad.66gd7/3
title: Reflection List
DOI: 10.5061/dryad.6dm3c/1
title: Simulations, sampling and allele frequencies
DOI: 10.5061/dryad.6nj94/2
title: Script for producing maps and analyses in R - PART 1
DOI: 10.5061/dryad.6nj94/3
title: Script for producing maps and analyses in R - PART 2
DOI: 10.5061/dryad.6nj94/4
title: Script for producing maps and analyses in R - PART 3
DOI: 10.5061/dryad.73kc6/1
title: SeaUrchin_272samples_1122markers

description: Tab delimited text file containing general information about 1122 2bRAD SNPs in 272 individuals.
The file is organized with a first raw containing headers followed by 1122 rows containing the loci. The first 17 loci are outliers as described in the paper.

Headers are:
- Catalog ID: locus ID in the Stacks catalogue; 
- File genepop ID: locus ID in the accompanying genepop file (same as before but with the SNP position embedded in the name); 
- Consensus sequence: the reference sequence for the locus determined. 
- Num SNPs: Number of SNPs detected at the locus;
- SNPs: position and alleles for all the SNPs detected at the locus;
- Num Alleles: total number of alleles for the locus;
- Selected SNPs: position used for population analyses;
- Alleles in GENEPOP file: correspondence with the alleles in the accompanying genepop file;
- 272 columns reporting the genotype for each individuals; missing genotypes are blanks.
DOI: 10.5061/dryad.73kc6/2
title: 272samples_1122markers_genepop

description: Text file (genepop input format) containing the genotypes used for population genomics analysis.
The file contains the genotypes of 1122 SNPs typed in 272 individuals, from 10 population samples. The first 17 loci are outliers as described in the paper. The population order is OTH, KAP, BOK, KOR, TRE, TOG, OTR, POC, FRN, TUN.
DOI: 10.5061/dryad.73kc6/3
title: SNPs_POWSIM

description: Text file used as input for POWSIM forward-time simulations with SNPs. 
The file is based on 8 Adriatic-Ionian populations and 1122 loci.
Rename it to POWSIM.IN and use powsim_b to run POWSIM.
DOI: 10.5061/dryad.77k64/1
title: Emedicae_snps

description: VCF file containing SNPs for the species Ensifer medicae.
DOI: 10.5061/dryad.77k64/2
title: Emeliloti_snps

description: VCF file containing SNPs of the species Ensifer meliloti
DOI: 10.5061/dryad.8gs7g/1
title: Tsuga EST sequences containing microsatellite regions

description: This file contains EST sequences containing microsatellite regions for both Tsuga diversifolia and Tsuga sieboldii.
DOI: 10.5061/dryad.9bk88/1
title: coop brood sr

description: Brood (mprop_brood) and helper (mprop_help) sex ratios, expressed as proportions of males, from published studies of cooperatively breeding birds. See references from appendices for full references. See manuscript for criteria used to determine data quality (3 = high, 1 = low). See Table A1 for abbreviations used in helper_effects (UK = ?, these species were excluded from restricted analysis; NP species were excluded from all analyses). Created in Microsoft Excel.
DOI: 10.5061/dryad.9bk88/2
title: effect sizes

description: Effect sizes used in meta-analysis of sex ratio adjustment in response to a lack of helpers in cooperatively breeding birds. Test statistics used to calculate effect size are provided, except where these were taken directly from a previous publication (detailed in technique column). Magnitude of effect given in effect_size; effect_exp includes positive/negative direction relative to prediction (biased production of helpful sex in response to deficiency of help). Variance is given in v and used to calculate weight (1/v) for calculation of weighted mean. Columns containing max and/or min are the same as for effect_exp but with the effect sizes of unknown direction treated as positive or negative respectively. Overall weighted mean and confidence interval reported in the manuscript.
DOI: 10.5061/dryad.9jh21/1
title: Behaviour observed in Experiment2

description: This is the raw data of the behaviours performed by workers during Experiment2. There are two excel sheets: one for focal workers and one for non-focal workers. Definition of column headings: 
- Group no.: identification number of the 3-worker groups 
- Treatment: social treatment applied to the workers (F+ or F-) 
- Worker no.: identification number of the workers