cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.fv322/1
title: Sample tree growth data with locations

description: This file provides measurements of annual radial growth for randomly distributed adult trees in the Rocky Mountains of the United States. Measurements were derived from increment cores collected in 2012 and 2013. A total of 5 tree species were sampled. Sample trees were distributed across a latitudinal gradient from the southern terminus of the Rockies in New Mexico to the Canadian border in the north. Target tree species include: Abies lasiocarpa (subalpine fir), Picea engelmannii (Engelmann spruce), Pinus contorta (lodgepole pine), Pinus ponderosa (ponderosa pine) and Pseudotsuga menziesii (Douglas-fir). Annual radial increment over a 20 year period was measured in millimeters for each sample tree. File headings include:

Sample tree ID: Identification code for the sample or target tree
Species: Species of the sample tree
Year: The year of growth
Site: General location of sample tree
Longitude and Latitude: Geographical coordinates of sample (based on North American Datum 1983)
Elevation: Elevation above sea level in meters
Aspect: Dominant terrain aspect in degrees from north
Terrain slope: Average slope of land surface measured in percent
Stem diameter: Diameter of tree stem at breast height (1.3 meters above root crown) in year of growth measured in centimeters
Age: Age of sample in year of growth
Ring width: Measured width of annual radial increment in millimeters
Date collected: Month, day, and year the sample was collected
DOI: 10.5061/dryad.fv322/2
title: Neighbor tree location and size data

description: This file provides data describing the density and configuration of sample tree neighborhoods for calculation of competition indices. The distance to and diameter at breast height (DBH; 1.3 meters above root crown) of all neighboring trees within a 15 m radius of the sample or target tree were measured. A total of 10 sample trees had empty neighborhoods (no neighbor trees within 15 meters). File headings include:

Sample tree ID: Identification code for the sample or target tree
Sample tree species: Species of sample tree
Neighbor tree species: Species of neighbor tree
Neighbor tree DBH: Diameter at breast height of neighbor tree in centimeters
Distance to neighbor tree: Distance from sample to neighbor tree in meters
DOI: 10.5061/dryad.gn95r.1/3.1
title: Findings from a systematic review of ebolavirus serology in subjects without known ebola virus disease

description: The dataset contains findings and information from 51 seroprevelance studies performed from on samples collected from 1961 to 2016. These investigated 84 exposure-defined subgroups of subjects reported to have had no symptoms of EVD during the outbreak period, or to have come from populations with no known outbreaks. The data covers more than 44,000 people. The dataset records the sample locations, exposure type, numbers investigated, number/% considered positive and the cut-off used to define positivity. The data comes from a systematic review of published papers: DOI/PMCID?PMIDs are recorded. Information on antigens tested, any validation work and other notes are in the ReadMe file, as are explanations of the variables
DOI: 10.5061/dryad.gq3rg/1
title: A hybrid organic-inorganic perovskite dataset

description: The hybrid organic-inorganic dataset includes 1346 CIF files, each of them provides the optimized structure and the accompanied material properties calculated with first-principles calculations using VASP. The README.txt file provides details on the inputs of the runs used to calculate the properties reportes.
DOI: 10.5061/dryad.j04ff/1
title: Raw stable carbon (d13C) and stable nitrogen (d15N) data in ‰ of Rattus rattus and Rattus norvegicus
DOI: 10.5061/dryad.j5s12/1
title: RSOS_Code

description: Matlab code used to produce model results for paper.
DOI: 10.5061/dryad.j60r4/1
title: code_Verin_etal_2017.tar

description: The tar.gz archive contains 4 folders. "dev_time_Nconst" contains the code for simulations of the evolution of development time; "it_Nconst" and "it_Nconst_S" contain the code for simulations of the evolution of adult survival, in the absence and in the presence of selection respectively; "pfix" contains the code used to compute the probability of fixation in the article. All the programs are in R. In each folder, the code for simulations has a name that starts with "code_". Other R files that were used to analyze the raw results and plot figures are also provided, along with .txt files that contain simulation results (in folders named "results"). In all simulations except "pfix", we used a parameter file called "param.txt" (provided) and obtained summary results by running a script ("analyse.R", also provided); the summary results are enclosed in files whose names start by "summary_", which were used to plot the figures. Note that "pfix" also contains a power analysis mentioned in the text of the article.
DOI: 10.5061/dryad.jc71g/1
title: Pumpkinseed Isotope Data

description: Stable isotope measurements for male pumpkinseed and progeny. Carbon d13 is lipid corrected where appropriate. Additionally, there is male standard length, jaw width, and collection site in this data set.
DOI: 10.5061/dryad.jg57k/1
title: Individual photographic identification data of killer whales at Marion Island

description: The file contains individual photographic identification data for killer whales observed at Marion Island, 2006-2013. Each row in the file represents a sighting of a group of killer whales. "Date" is the date and time (UTC +03:00) of the sighting, "Site" is a code representing the locality of the sighting and "IDs" contains the alphanumeric individual IDs of all animals in the group (IDs are separated by spaces). For further methodological details see Reisinger et al. (2011) http://dx.doi.org/10.3354/ab00340.
DOI: 10.5061/dryad.jg57k/2
title: Genotype data of killer whales sampled at Marion Island

description: This file contains genotype data for 20 killer whales biopsy sampled at Marion Island, 2011-2013. Individuals were genotyped at 12 microsatellite loci. Individuals, identified by the column "Individual ID", are represented in rows, with loci represented in the columns 4-27. The sex (column "Sex") and age class (column "Class") of each individual is given as male ("M"), female ("F") or unknown ("U") and adult ("A") or juvenile ("J"), respectively.
DOI: 10.5061/dryad.q90j2/1
title: Microsatellite genotype of Plestiodon kishinouyei

description: This file includes genotypes of 108 individuals of Plestiodon kishinouyei for seven microsatellite loci in GenAlEx format. The locality names correspond to those of Table 2 in the text.
DOI: 10.5061/dryad.q90j2/2
title: Microsatellite genotype of Plestiodon stimpsonii

description: This file includes genotypes of 71 individuals of Plestiodon stimpsonii for five microsatellite loci in GenAlEx format. The locality names correspond to those of Table 2 in the text.
DOI: 10.5061/dryad.s04h8/1
title: Cheng et al 2017_Ecol Evol_DRYAD

description: Microsatellite genotypes (8 loci) for 114 snowshoe hares, representing all unique genotypes confirmed from hare tissue or fecal pellet samples collected at 5 study sites.
DOI: 10.5061/dryad.s5j72/1
title: Soil_conditioning_data

description: Data used to calculated soil conditioning effects.
DOI: 10.5061/dryad.vv183/1
title: Zhang et al Peristenus Code 1

description: R code for Fig 3A-B
DOI: 10.5061/dryad.vv183/2
title: Zhang et al Peristenus Code 2

description: R code for Fig 3C-D and LDA ratio extractor
DOI: 10.5061/dryad.vv183/3
title: Zhang et al Peristenus Master

description: Excel spreadsheet with data for morphometrics analysis
DOI: 10.5061/dryad.vv183/4
title: Zhang et al Peristenus Master

description: Text file with data for morphometrics analysis
DOI: 10.5061/dryad.vv183/5
title: Zhang et al Peristenus Concat

description: Concatenated CO1 and CytB sequences
DOI: 10.5061/dryad.22v00/1
title: EGR1_data

description: Number of EGR1 neurons/mm2 in the NCM, CMM and IC.
DOI: 10.5061/dryad.273d3/4
title: Genalex_spatial_autocorrelation_females

description: Genalex file with data for spatial autocorrelation analysis of females (Fig. 3.c)
DOI: 10.5061/dryad.273d3/5
title: Genalex_spatial_autocorrelation_full _plated

description: Genalex file with data for spatial autocorrelation analysis of full-plated individuals (Fig. 3.b)
DOI: 10.5061/dryad.273d3/6
title: Genalex_spatial_autocorrelation_low+partial _plated

description: Genalex file with data for spatial autocorrelation analysis of low and partial-plated individuals (Fig. 3.b)
DOI: 10.5061/dryad.273d3/7
title: body_shape_coordinates

description: Body shape coordinates for analysis using PAST 3.12 (Fig. 2).
DOI: 10.5061/dryad.2gn8c/2
title: Supporting Data

description: Western Blots, qRT PCR and assay values, Immunohistochemistry and Immunocytochemistry Slides
DOI: 10.5061/dryad.49d81/1
title: Alarm-call-acoustic-parameters

description: •	Alarm-call-acoustic-parameters:
Contains the values of the acoustic parameters measured for the different types of alarm calls.
DOI: 10.5061/dryad.49d81/2
title: Alarm-calls-predator-presentations

description: •	Alarm-calls-predator-presentations:
Gives the alarm call types produced in reaction to different types of predator presentations.
DOI: 10.5061/dryad.49d81/3
title: Natural-Alarm-calls

description: •	Natural-Alarm-calls:
Lists the different alarm calls recorded during natural encounters with the putative referent they were given to and the type of call they were classed as.
DOI: 10.5061/dryad.49d81/4
title: Playbacks

description: •	Playbacks:
Gives the identity of focal mongooses used for playbacks and their responses to the playback of different type of call.
(DM: dominant male; DF: dominant female; SM: subordinate male; SF: subordinate female)
DOI: 10.5061/dryad.4q6h2/1
title: Sister group means and contrasts

description: Data on means and contrasts between sister groups
DOI: 10.5061/dryad.4q6h2/2
title: Data on bird species in the sister groups

description: Data on species in the sister groups used in the study
DOI: 10.5061/dryad.516s0/1
title: FE-2016-00921 Package

description: Package containing all processed data used for all analyses in the paper FE-2016-00921. Data package contains a .csv file with data used to construct laboratory calibration equations relating bimodal metabolic rates in sea snakes to body acceleration. Data package also contains a .csv file with field acceleration data and estimated field metabolic rates for all individuals in this study.
DOI: 10.5061/dryad.663hq/1
title: Carex kucyniakii (Cyperaceae) complex five marker dataset

description: These data come from the five the marker data set (ITS, ETS 1f, matK, ndhF, rps16 – ca. 4400 bp) analyzed the Starr et al. (2015. Molecular Phylogenetics and Evolution 88: 105–120) for the Siderostictae Clade with the incorporation of additional individuals not included in their study.
DOI: 10.5061/dryad.6pr02/1
title: General dataset : phenology and reproductive success

description: This file contain all the information at the nest box level. More precisely there are the treatment of the nest box, the data on the phenology of reproduction and the data on reproductive success.
DOI: 10.5061/dryad.6pr02/2
title: Characteristics of females at capture
DOI: 10.5061/dryad.6pr02/3
title: Characteristics of males at capture
DOI: 10.5061/dryad.6pr02/4
title: Characteristics of chicks at capture
DOI: 10.5061/dryad.6pr02/5
title: Body mass growth of chicks from site 1
DOI: 10.5061/dryad.6qs86/20
title: P06Se02

description: EEG data were recorded from participant 6(session 2). For further details, please see the associated README file.
DOI: 10.5061/dryad.6qs86/21
title: P07Se02

description: EEG data were recorded from participant 7(session 2). For further details, please see the associated README file.
DOI: 10.5061/dryad.6qs86/22
title: P08Se02

description: EEG data were recorded from participant 8(session 2). For further details, please see the associated README file.
DOI: 10.5061/dryad.6qs86/23
title: P09Se02

description: EEG data were recorded from participant 9(session 2). For further details, please see the associated README file.
DOI: 10.5061/dryad.6qs86/24
title: P10Se02

description: EEG data were recorded from participant 10(session 2). For further details, please see the associated README file.
DOI: 10.5061/dryad.6qs86/25
title: P11Se02

description: EEG data were recorded from participant 11(session 2). For further details, please see the associated README file.
DOI: 10.5061/dryad.6qs86/26
title: P12Se02

description: EEG data were recorded from participant 12(session 2). For further details, please see the associated README file.
DOI: 10.5061/dryad.6qs86/27
title: P02Se03

description: EEG data were recorded from participant 2(session 3). For further details, please see the associated README file.
DOI: 10.5061/dryad.6qs86/28
title: P03Se03

description: EEG data were recorded from participant 3(session 3). For further details, please see the associated README file.
DOI: 10.5061/dryad.77p06/2
title: 2 Pulse Buffer on Prior Space and Truncating Hyperprior Range

description: Script and result files for pulse buffer on prior space and truncating hyperprior range simulation experiments.
DOI: 10.5061/dryad.82jk8/1
title: Ground Woodpecker data - JAB

description: Lab metabolic rate and air temperature data (sheet 1) and body temperature data for free-ranging individuals (sheet 2)
DOI: 10.5061/dryad.8g7h7/1
title: RCCL .fam
DOI: 10.5061/dryad.8g7h7/2
title: RCCL .bim
DOI: 10.5061/dryad.8g7h7/3
title: RCCL .bed
DOI: 10.5061/dryad.8g7h7/4
title: HD .bed
DOI: 10.5061/dryad.8g7h7/5
title: HD .bim
DOI: 10.5061/dryad.96d55/1
title: Diversification
DOI: 10.5061/dryad.96d55/2
title: Appendix

description: A pdf file with results and proofs referred in the article.
DOI: 10.5061/dryad.991p6/10
title: GeoSSE (R code & files)

description: This folder includes the R code/functions to recreate our GeoSSE analyses on biome diversification/transition rates. Included are the 5 GeoSSE binary distribution coding files.
DOI: 10.5061/dryad.991p6/11
title: BEAST MCC tree Pygopodoidea

description: The MCC tree of the Pygopodoidea used for GeoSSE and BioGeoBEARS analyses.
DOI: 10.5061/dryad.991p6/5
title: Alignments: nDNA for NUCLEAR ONLY analyses

description: Alignments of NUCLEAR loci used for NUCLEAR ONLY analyses (BEAST). Folder includes individual locus alignments, as well as a single interleaved alignment file of all loci.
DOI: 10.5061/dryad.991p6/6
title: TESS: Mass Extinction Bayes factors GIF

description: GIF (open in internet browser) of support for and timing of a mass extinction event across 100 posterior BEAST trees.
DOI: 10.5061/dryad.991p6/7
title: TESS.Analysis Loop (R code)

description: This R code provides the functions necessary to run a TESS analysis, investigating the timing and frequency of mass extinction and diversification shifts across a sample of trees, and  then summarize the data. It also includes functions for model comparison among constant rate and variable rate models with and without mass extinction, using stepping stone sampling and Bayes factors for support.
DOI: 10.5061/dryad.991p6/8
title: TreePar R Code

description: This is R code to run the TreePar analysis (optimizing the likelihood on speciation/extinction shifts). Also included is a loop for comparing TreePar models across a set of trees.
DOI: 10.5061/dryad.991p6/9
title: BioGeoBEARS.Pygopodoidea

description: BioGeoBEARS distribution area matrix and MCC tree used.
DOI: 10.5061/dryad.9g785/2
title: turley_et_al_2017_seed_addition_plots_all_species_percent_cover_2015

description: Plant community data with percent covers of all species within seed addition plots and paired control plots. See read me file for more info.
DOI: 10.5061/dryad.9g785/4
title: turley_et_al_2017_fecundity_2013

description: Fecundity data (flowering and seed production) for several species growing in thinned and unthinned longleaf pine savanna remnants. See read me file for more info.
DOI: 10.5061/dryad.9g785/5
title: turley_et_al_2017_species_codes_to_species

description: List of 6-letter species codes and corresponding full scientific names based on up-to-date nomenclature. See read me file for more info.
DOI: 10.5061/dryad.b58vg/1
title: Parasites and longevity data.

description: File contains all data necessary to perform analysis presented in the publilcation.
DOI: 10.5061/dryad.cg54j/1
title: Incubation and Hatching
DOI: 10.5061/dryad.cg54j/2
title: Feeding and brooding rates
DOI: 10.5061/dryad.cg54j/3
title: GHJU Nestling growth
DOI: 10.5061/dryad.cg54j/4
title: HOWR Nestling growth
DOI: 10.5061/dryad.cg54j/5
title: RFWA Nestling growth
DOI: 10.5061/dryad.cg54j/6
title: WEBL Nestling growth
DOI: 10.5061/dryad.fh347/1
title: Data_DroughtRecoveryPerformance_YinBauerle_2017
DOI: 10.5061/dryad.ft1d5/1
title: Data_RSOS-170203
DOI: 10.5061/dryad.gf7r3/1
title: Amino acid alignment of PRDM9 SET domains
DOI: 10.5061/dryad.k2r40/1
title: Mathematica script for community dynamics model

description: This script runs in Mathematica by Wolfram. It is used to implement the model community described in the Appendix as an illustration of an autocatalytic ecological system.
DOI: 10.5061/dryad.s5j72/2
title: Biomass_growth_data

description: Data used to analyze growth differences and calculate plant-soil feedback effects.
DOI: 10.5061/dryad.sg8c5/1
title: Heat experiment with hardening treatments

description: This data set contains heat knockdown time (min) of female and male D. melanogaster after a control treatment (Cont), a single 35°C (35-1) and 37°C (37-1) hardening treatment and a triple 35°C (35-3) and 37°C (37-3) hardening treatment, scored in two experimental blocks (A and B).
DOI: 10.5061/dryad.sg8c5/2
title: Predation experiment with hardending treatment

description: This data set contains survival (yes or no) of female and male D. melanogaster after different heat hardening treatments when exposed to two predators (jumping spiders and juvenile mantids). Hardening treatments included a control treatment (Cont), a single 35°C (35-1) and 37°C (37-1) hardening treatment and a triple 35°C (35-3) and 37°C (37-3) hardening treatment. Five different colors were used to mark the treatments (blue, orange, yellow, pink and violet) and 40/20 replicate vials containing 1/2 flies per treatment were used for the spider/mantids predation respectively.
DOI: 10.5061/dryad.sg8c5/3
title: Predation experiment with spiders

description: This data set contains survival (yes or no) of female and male D. melanogaster under predation by jumping spiders. Survival of control lines (Control1-5) and lines selected for increased heat resistance (Heat1-5) was scored after 0, 1 and 2 generations of relaxation. Six different colors were used to mark the selection lines (blue, green, orange, yellow, pink and violet) and 50 replicate vials containing 6 flies from 3 control and 3 selected lines were used.
DOI: 10.5061/dryad.sg8c5/4
title: Predation experiment with mantids

description: This data set contains survival (yes or no) of female and male D. melanogaster under predation by juvenile mantids). Survival of control lines (Control1-5) and lines selected for increased heat resistance (Heat1-5) was scored after 0, 1 and 2 generations of relaxation. Six different colors were used to mark the selection lines (blue, green, orange, yellow, pink and violet) and 30 replicate vials containing 12 flies from 3 control and 3 selected lines were used.
DOI: 10.5061/dryad.sg8c5/5
title: Heat experiment with predation lines

description: This data set contains heat knockdown time (min) of female and male D. melanogaster originating from two experiments: episodic and continuous predation. The episodic experiment contained two replicate lines of predation by juvenile mantids (Pred1 and Pred2) and controls (Cont1 and Cont2). The continuous experiment contained four replicate lines of predation by juvenile mantids (PR1-4), predation by jumping spiders (SR1-4) and controls (CR1-4). Heat knockdown time was scored in two experimental blocks (A and B).
DOI: 10.5061/dryad.1fk2s/1
title: CT_PT_TT_data

description: This is the raw data for each of the thermal, personality, and cognitive traits used in the analyses for individual lizards.
DOI: 10.5061/dryad.22v00/2
title: preference_score_vs_song_measures

description: Percent difference for measures of song between courtship and non-courtship singing.  Measures include the number of introductory notes and motifs, syllable entropy, CV of the fundamental frequency and song tempo (motif duration).
DOI: 10.5061/dryad.22v00/4
title: preference_score_by_maleID

description: Average preference scores of all females tested on each male stimulus.
DOI: 10.5061/dryad.22v00/5
title: preference_scores_all_females

description: raw data for call back preference tests for normally-reared and song-naive females tested on stimuli from different males
DOI: 10.5061/dryad.236j7/1
title: Spot Position Measurements

description: Tables including the Acapella output (spot positions) and the R-calculated spot-to-spot distances by experiment.
DOI: 10.5061/dryad.236j7/2
title: Acapella Scripts and Parameters

description: Acapella scripts and parameter files used to analyze image files and generate spot positions
DOI: 10.5061/dryad.236j7/3
title: Rmd Scripts

description: R markdown scripts used to calculate distances from Acapella output spot positions and perform subsequent analyses
DOI: 10.5061/dryad.236j7/4
title: BC_160524_1000 images

description: Images from acquisition BC_160524 with 1 micron z-slices
DOI: 10.5061/dryad.236j7/5
title: BC_160525_300 images

description: Images from BC_160525 experiment with 300 nm z-slices
DOI: 10.5061/dryad.236j7/6
title: BC_160531_300 images

description: Images from BC_160531 acquisition with 300 nm z-slices
DOI: 10.5061/dryad.236j7/7
title: BC_160614_300 images

description: Images from BC_160614 acquisition with a 300 nm z-slices
DOI: 10.5061/dryad.236j7/8
title: README
DOI: 10.5061/dryad.3ft30/5
title: PE-Microphallus_annotated_transcriptome

description: Fasta formatted annotated transcriptome for PE-Microphallus The assembly was generated using Trinity, followed by TransDecoder, then CD-HIT-EST. The transcriptome was annotated using blastx and Blast2GO.
DOI: 10.5061/dryad.3ft30/6
title: PA-Microphallus_annotated_transcriptome

description: Fasta formatted annotated transcriptome for PA-Microphallus The assembly was generated using Trinity, followed by TransDecoder, then CD-HIT-EST. The transcriptome was annotated using blastx and Blast2GO.
DOI: 10.5061/dryad.49d81/5
title: Reactions-natural-alarm-calls

description: •	Reactions-natural-alarm-calls:
Lists the responses of mongooses when hearing an alarm produced in response to a natural predator encounter.
DOI: 10.5061/dryad.5jd7j/1
title: Choice software ver 1

description: This present a Windows executable software that allows to estimate in a series of mating pair samples two mating preference estimators (r coefficient and Crough). The ZIP fie includes the executable, the software intructions (in pdf) and one file data example (sample.txt).
DOI: 10.5061/dryad.62p91/1
title: Data_experiment1

description: the file reports subject number, response of the participant, frequency values (expressed as differences from the standard), speed values (expressed as differences from the standard)
DOI: 10.5061/dryad.62p91/2
title: Data experiment 2

description: As for experiment 1, the data show subject number, responses, frequency values (as differences from the standard stimulus), speed values (as differences from the standard stimulus)
DOI: 10.5061/dryad.62p91/5
title: Data experiment 2_ after effect

description: the file presents data of experiment 2 (after effect): subject number, AM frequency, direction of the adapting stimulus, speed and direction of the test stimulus, and participant's responses
DOI: 10.5061/dryad.636b0/1
title: DNA-based 16S rRNA gene amplicon profiles

description: 16S rRNA gene amplicon sequencing profiles of wastewater microbiomes generated from extracted metagenomic DNA. This file contains both wasterwater inlet and outlet profiles.