cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.d8p66/12
title: analysis files

description: Matlab codes used for analysis. Please look at readme file first.
DOI: 10.5061/dryad.d8p66/13
title: hindbrain electrophysiological recordings

description: Hindbrain electrophysiological recordings, please look at readme file first.
DOI: 10.5061/dryad.d8p66/2
title: behavior data

description: behavior data files, please unzip and look at readme file first.
DOI: 10.5061/dryad.d8p66/6
title: dual recordings

description: simultaneous recordings from afferent pairs. Unzip then look at readme file
DOI: 10.5061/dryad.ft928/10
title: All kmer=27 minicontigs

description: This file contains minicontigs assembled with all second reads we generated. Second reads correspond to reads generated from random sheared ends of a genomic fragment. Since reads with different start and endings position were generated from the same genomic regions it allows the assemble of minicontigs bigger than read size usually sequenced (bigger than ~80bp reads)
DOI: 10.5061/dryad.ft928/9
title: Scripts and command line of each program used in this pipeline.

description: This file contains all necessary commands and scripts to reproduce the outputs uploaded here (SNP, minicontigs, microsatellites, repetitive element discovery and functional annotation.
DOI: 10.5061/dryad.gh469/1
title: Matlab code to produce closed form solutions for radial and KGD hydraulic fractures

description: This file contains a Matlab code that is used to produce closed form solutions for a radial hydraulic fracture, whose behavior is determined by a simultaneous interplay of fracture toughness, fluid viscosity (Newtonian fluid), and leak-off (Carter's model). In addition to the radial geometry, there is an option to select a plane strain case (i.e. KGD fracture). The code also contains functions that produce the so-called vertex solutions, which are the limiting cases of the global solutions. In particular, there are four vertex solutions: viscosity-storage, viscosity-leak-off, toughness-storage, and toughness-leak-off. To get the results, launch "KGD_Rad_sol_main.m" in Matlab, select material parameters, and run the code. The output parameters are the fracture radius, aperture variation, pressure variation (note the pressure is less accurate, see paper), and efficiency.
DOI: 10.5061/dryad.h0832/1
title: Cover of all species during initial surveys

description: Data are cover of macroalgae recorded during initial surveys of 159 plots during March of 2007 in the Bodega Marine Reserve, Sonoma County, California.
DOI: 10.5061/dryad.h0832/2
title: Average cover of all species along a gradient in species richness

description: Summary data from initial surveys highlighting cover of all species along a gradient in species richness.
DOI: 10.5061/dryad.h0832/3
title: Differences in perennial vs. ephemeral cover

description: Data are differences between the cover of perennial and ephemeral species in each plot over six censuses spanning 18 months. Values &gt; 0 indicate higher perennial cover, whereas values &lt; 0 indicate higher ephemeral cover. Environmental factors included wave exposure (exposed, protected) and tidal elevation (higher, lower), and experimental manipulations included screens (absent [0], present [1]), herbivores (removal, ambient), and nutrients (none, addition).
DOI: 10.5061/dryad.h0832/4
title: Differences in perennial vs. ephemeral richness

description: Data are differences between the number of perennial and ephemeral species in each plot over six censuses spanning 18 months. Values &gt; 0 indicate higher perennial richness, whereas values &lt; 0 indicate higher ephemeral richness. Environmental factors included wave exposure (exposed, protected) and tidal elevation (higher, lower), and experimental manipulations included screens (absent [0], present [1]), herbivores (removal, ambient), and nutrients (none, addition).
DOI: 10.5061/dryad.h67t6/1
title: Joesch et al. 2016 - Data Fig. 3k - sections 205-231
DOI: 10.5061/dryad.h67t6/2
title: Joesch et al. 2016 - Fig 3k - sections 232-260
DOI: 10.5061/dryad.h67t6/3
title: Joesch et al. 2016 - Fig 3k - sections 261-280
DOI: 10.5061/dryad.h67t6/4
title: Joesch et al. 2016 - Fig 3k - sections 281-300
DOI: 10.5061/dryad.h67t6/5
title: Joesch et al. 2016 - Fig 3k - sections 301-320
DOI: 10.5061/dryad.j8q34/1
title: Data for morphology, fitness, frequency and color

description: morphology.txt includes the data used for PCA. fitness.txt includes the data on fruit set rate and the diameter of fruit. frequency.txt is the data derived from field survey. nec_col.txt and tepal_col includes the data on color of nectar guide and tepal, respectively.
DOI: 10.5061/dryad.jf7cr/1
title: Tutorial and files associated with the Wolak & Reid 'How To' paper in Journal of Animal Ecology.

description: Contains MCMCglmm, WOMBAT, and ASReml (standalone) analysis files and model output files.
DOI: 10.5061/dryad.kn0v7/1
title: Data_Costa-Pereira_Biotropica2017

description: GutFullness_BodyCondition: Residual body mass and gut fullness of the tetra fish Astyanax lacustrus in the wet and dry seasons in the Pantanal wetlands.

Presence_preys_diet: Food items and respective trophic categories consumed by the tetra fish Astyanax lacustris in the Pantanal wetlands during the wet and dry seasons.

Population_diet_proportions: Proportions of the mass of resources in the diet of the tetra fish Astyanax lacustris in the wet and dry seasons in the Pantanal wetlands.

Individual_diet_proportions: Relative proportion of food categories in the diet of individuals of the tetra fish Astyanax lacustris in the wet and dry seasons in the Pantanal wetlands. PSi is the proportional similarity index of each individual, which quantifies the overlap between individual i’s niche and the population niche.

Source_contribution_isotope: Confidence intervals (CI 95%) and modes of source contribution distributions to the isotopic composition of the tetra fish Astyanax lacustris in the wet and dry seasons in the Pantanal wetlands.

Simulations_V_dry: Simulated V values in the dry season based on the isotope variances (adaptation of the method proposed by Araújo et al. 2007a). Rows represent simulated populations with different degrees of individual specialization and variance in individuals’ isotope values (Varδi).

Simulations_V_wet: Simulated V values in the wet season based on the isotope variances (adaptation of the method proposed by Araújo et al. 2007a). Rows represent simulated populations with different degrees of individual specialization and variance in individuals’ isotope values (Varδi).
DOI: 10.5061/dryad.mb0sd/1
title: supplementary_data
DOI: 10.5061/dryad.pd1sp/1
title: Outcomes of pairwise infections

description: Fates of gypsy moth larvae in a pairwise infection experiment. The "Family" column refers to gypsy moth family and the "Strain" column refers to baculovirus strain. "Infection Day" lists the day that individual was infected out of the three days we carried out infections. In the "Fate" column, "P" means pupated and "V" means died from virus.
DOI: 10.5061/dryad.v2q66/1
title: Morphometric data on two species of Coryphophylax from the Andaman Islands

description: The data file Coryphophylax morphometry.csv contains morphometric data on two species of Coryphophylax, C. subcristatus and C. brevicaudus. These data were used in morphometric analyses which were part of the description of the new species (C. brevicaudus) (Harikrishnan et al, 2012).
DOI: 10.5061/dryad.35bk0/1
title: Biomass, Biodiversity Effects, and Diversity for all three years
DOI: 10.5061/dryad.486t8/1
title: Online_repository_20.12.16
DOI: 10.5061/dryad.4gg07/4
title: Holman&Wichmann Appendix 1

description: Proof of algorithm to maximize number of independent tests
DOI: 10.5061/dryad.4gg07/5
title: Holman&Wichmann Appendix 2

description: Data sources and outgroup test results by language family
DOI: 10.5061/dryad.4gg07/6
title: Holman&Wichmann Appendix 3

description: Simulation methods
DOI: 10.5061/dryad.4gg07/7
title: Holman&Wichmann Folder 1

description: Program to produce simulated language families
DOI: 10.5061/dryad.4gg07/8
title: Holman&Wichmann Folder 2

description: Program to run outgroup tests on simulated language families
DOI: 10.5061/dryad.5th45/1
title: predator-size-prey-size-data

description: This csv contains the data used for the predator size - prey size analysis.
DOI: 10.5061/dryad.5th45/2
title: predator-size-prey-size-metadata

description: This csv contains the column names and descriptions for
DOI: 10.5061/dryad.5th45/3
title: gape-size-body-size-data

description: This csv contains the data for the gape size - body size analysis.
DOI: 10.5061/dryad.5th45/4
title: gape-size-body-size-column-metadata

description: This csv contains the column descriptions for the gape size-body size data.
DOI: 10.5061/dryad.6523g/1
title: Phenotypic data - univariate analyses

description: Raw phenotypic data from each of the Arabidopsis lyrata populations examined, collected in a common garden from offspring of a nested paternal half-sib crossing design. This includes plant size and reproduction. Refer to the README for column descriptions.
DOI: 10.5061/dryad.6523g/2
title: Phenotypic data - multiivariate analyses and G estimation

description: Phenotypic data from each of the Arabidopsis lyrata populations examined, collected in a common garden from offspring of a nested paternal half-sib crossing design. This includes plant size and reproduction. In this file, individuals with missing data have been removed in order to estimate G matrices. Refer to the README for column descriptions.
DOI: 10.5061/dryad.6523g/3
title: Phenotypic data for estimating selection gradients

description: This phenotypic field-collected data set (reproduction, plant and flower size of Arabidopsis lyrata for two years) is part of Sandring and Ågren (2009, Evolution). This data allowed estimation of selection gradients that were used in one of the multivariate methods of G matrix comparison (Method 4, Aguirre et al. 2014). Refer to the README file for column names.
DOI: 10.5061/dryad.6523g/4
title: Univariate analyses - R script

description: Annotated R script of the univariate analyses
DOI: 10.5061/dryad.6523g/5
title: Multivariate analyses and G estimation - R script

description: Annotated R script of the multivariate analyses and G estimation
DOI: 10.5061/dryad.7f91m/3
title: soil temp

description: Soil temperatures for 5 consecutive days.
DOI: 10.5061/dryad.7vj52/1
title: SpeciesSupplement

description: Carnivore species data file
DOI: 10.5061/dryad.91867/2
title: concatenated dataset used for RAxML analysis

description: Concatenated alignment of the complete dataset (1361 loci) and the inferred maximum likelihood RAxML tree (100 tree searches, 1000 bootstrap replicates)
DOI: 10.5061/dryad.91867/3
title: Alignments

description: All 1852 loci (contains both complete and incomplete, up to 1 species missing, alignments)
DOI: 10.5061/dryad.91867/4
title: ASTRAL complete dataset, random locus subsets

description: The ASTRAL input and output for the summary-coalescent species tree analysis based on the complete dataset. Locus subsets were randomly (i.e. not ranked by Tree Certainty score) selected.
DOI: 10.5061/dryad.91867/5
title: ASTRAL complete dataset, ranked locus subsets

description: The ASTRAL input and output for the summary-coalescent species tree analysis based on the complete dataset. Locus subsets were ranked (i.e. ranked by Tree Certainty score) selected.
DOI: 10.5061/dryad.91867/6
title: ASTRAL incomplete dataset, random locus subsets

description: The ASTRAL input and output for the summary-coalescent species tree analysis based on the incomplete dataset. Locus subsets were randomly (i.e. not ranked by Tree Certainty score) selected.
DOI: 10.5061/dryad.bj0b2/1
title: Dataset folder

description: The Dataset folder contains all the individual raw data used to plot the figures presented in the study. The folder contains a README.pdf file describing the meaning of each column in the files.
DOI: 10.5061/dryad.cd546/111
title: Online Appendix 16

description: Comparison of BUCKy concordance factors for a completely sampled MCMC analysis (last 90% of samples) and a subsampled analysis (last 10% of samples), using the longest 50 low-copy nuclear loci. Branch labels are concordance factors; all factors ≥ 0.1 are in bold. Only internal branches are shown with concordance factors, as in online Appendix 4.
DOI: 10.5061/dryad.cd546/112
title: Online Appendix 17

description: Comparison of BUCKy concordance factors for different alpha values in the subsampled MCMC analyses. Branch labels are concordance factors; all factors ≥ 0.1 are in bold. External branch concordance factors are not shown; all external branches (those leading to single OTUs) must have 100% concordance since every group containing one OTU must be present in all trees, and hence these numbers may be misleading.
DOI: 10.5061/dryad.cd546/113
title: Online Appendix 18

description: Analysis of the low-copy nuclear concatenated dataset with no partitioning scheme.
DOI: 10.5061/dryad.cd546/114
title: Online Appendix 19

description: Analysis of the low-copy nuclear concatenated dataset with each genetic locus treated as a separate partition.
DOI: 10.5061/dryad.cd546/115
title: Online Appendix 20

description: Concatenated low-copy nuclear phylogeny inferred in RAxML without partitioning, with four rogue taxa pruned as suggested by RogueNaRok. Branch support in sect. Rhodoheuchera (magenta) are dramatically improved with only the position of H. rubescens var. versicolor remaining uncertain. Labeling and coloring of branches follow Fig. 1.
DOI: 10.5061/dryad.cd546/116
title: Online Appendix 21

description: Analysis of the plastid genome dataset with coding and noncoding regions treated as separate partitions and the second copy of the inverted repeat region (IR) deleted. The outgroup branch is not to scale; otherwise, branches are shown proportional to ML branch lengths; branch coloration follows Fig. 1.
DOI: 10.5061/dryad.cd546/117
title: Online Appendix 22

description: Analysis of the plastid genome dataset with no partitioning scheme and the second copy of the inverted repeat region (IR) deleted. The outgroup branch is not to scale; otherwise, branches are shown proportional to ML branch lengths; branch coloration follows Fig. 1.
DOI: 10.5061/dryad.d05h5/1
title: Data for Ossip-Drahos et al. 2016

description: Mean spectrophotometric measures and Just-noticeable-differences estimated for bellies of males and females of four species of Sceloporus lizards.
DOI: 10.5061/dryad.h3r45/1
title: outcomesv2alldataNOPHIdryad2

description: This is the raw dataset provided by the informaticist, after we added missing BMI and surgery dates that were available in the chart,  calculated time interval variables, changed age &gt; 89 years to 89 years, and then removed all other PHI (dates, zip code). The variables in this dataset have not been recoded or imputed. The codebook for the variable names is provided on the second sheet of the excel file.
DOI: 10.5061/dryad.h67t6/10
title: Joesch et al. 2016 - Fig 3k - sections 401-425
DOI: 10.5061/dryad.h67t6/11
title: Joesch et al. 2016 - Fig 3k - sections 451-475
DOI: 10.5061/dryad.h67t6/12
title: Joesch et al. 2016 - Fig 3k - sections 576-504
DOI: 10.5061/dryad.h67t6/6
title: Joesch et al. 2016 - Fig 3k - sections 346-370
DOI: 10.5061/dryad.h67t6/7
title: Joesch et al. 2016 - Fig 3k - sections 321-345
DOI: 10.5061/dryad.h67t6/8
title: Joesch et al. 2016 - Fig 3k - sections 371-400
DOI: 10.5061/dryad.h67t6/9
title: Joesch et al. 2016 - Fig 3k - sections 426-450
DOI: 10.5061/dryad.k9b6f/1
title: LangoScholey_Archive _Map

description: Picture showing a map of the files in this archive
DOI: 10.5061/dryad.k9b6f/2
title: PSAnalyse_0_99

description: This folder contains all the files required for running of the program PSAnalyse
DOI: 10.5061/dryad.k9b6f/3
title: LangoScoley_Control_Sequence_Files

description: This folder contains the control sequences for the specific variants used for the analyses
DOI: 10.5061/dryad.mt685/2
title: Oral antibiotic consumption in the state of São Paulo, 2008-2012

description: Data about retail antibiotic sales by pharmacy in the state of São Paulo for the years of 2008 to 2012, measured in defined daily doses, were provided by Intercontinental Medical Health Statistics Brazil. These data were organised calculating annual oral antibiotic consumption for each municipality, and merged with socioeconomic variables, available from a national census, to create this data file, using the statistical software STATA 13.0. Predicted consumption was calculated using linear regression, and the policy effect variables was calculated as follows: (100*(Observed consumption in 2011 and 2012-predicted consumption in 2011 and 2012))/(predicted consumption in 2011 and 2012). Sheet 2 contains data on monthly oral antibiotic consumption in the state of São Paulo during the same period.
DOI: 10.5061/dryad.rt201.2
title: Data from: A fresh approach reveals how dispersal shapes metacommunity structure in a human-altered landscape
DOI: 10.5061/dryad.rt201.2/1.2
title: BenthicData

description: Densities (numbers per 0.09 metres squared) of different species of invertebrates collected at 8 sites in each of two streams in two seasons.
DOI: 10.5061/dryad.rt201.2/2.2
title: Drift Data

description: Average numbers or individuals in the drift (over two hours) of multiple species of invertebrates sampled at 4 sites in each of two streams and two seasons.
DOI: 10.5061/dryad.rt201.2/3.2
title: List Of Species Names

description: A list of all species in the benthic and drift data sets with taxonomic classification and variable names.
DOI: 10.5061/dryad.rt201.2/4.2
title: Environmental & Spatial Variables

description: Various measures of environmental variation at 8 sites in each of two streams during summer plus the latitude and longitude for each site.
DOI: 10.5061/dryad.s95s6/1
title: Data_brut

description: In this data, we have developmment and survival of Macrolophus pygmaeus feed on different prey.We measured also the fertility of females Macrolophus rearing on these prey.
DOI: 10.5061/dryad.s95s6/2
title: Data_analyses

description: This is summary data used for statistical tests.
DOI: 10.5061/dryad.t6h51/1
title: Didiano Johnson Duval_data_2016.06.13 PLOS ONE
DOI: 10.5061/dryad.v7t4q/1
title: 2005 all data

description: This file contains all data used in the 2005 analyses for the paper. It lists pot and treatment details, and biomass, chemistry and microbial data.
DOI: 10.5061/dryad.v7t4q/2
title: 2011 all data

description: This file contains all data from the 2011 analyses including pot and treatment ID, biomass, chemistry and microbial data. See Readme file attached to the 2005 data for more details.
DOI: 10.5061/dryad.267d2/4
title: PHACEphenology_database_final_forSD

description: Weekly phenology observations exposed to CO2 enrichment and warming over course of the growing season years 2007-2011 in a mixed-grass prairie, Cheyenne WY.
DOI: 10.5061/dryad.267d2/5
title: PHACEclimate_database_final_forSD

description: Annual site-specific climate data for years 2007-2011, Cheyenne WY.
DOI: 10.5061/dryad.267d2/6
title: PHACEswc_database_final_forSD

description: Volumetric soil water content data from primary rooting depth (5-25cm) in a mixed-grass prairie exposed to CO2 enrichment and warming, years 2007-2011, Cheyenne WY.
DOI: 10.5061/dryad.267d2/7
title: PHACEphenology_summary_final_forSD

description: Mean timing of life cycle events (in DOY) for all species in all treatments in all years.  Treatment designation are as follows: ct are the ambient CO2, ambient temperature treatments (i.e. control);  cT are the ambient CO2, warmed treatments; Ct are the CO2 enriched, ambient temperature treatments; and CT are the CO2 enriched, warmed treatments.  Marked (*) cells designate those species that initiated leaf emergence and flower production earliest, and seed maturation and senescence latest in the season within a treatment within a year. Standard errors (SE) are included in parenthesis where applicable. Where SE is blank, there was no variation in induction dates for that particular species or the sample size was not more than one individual per treatment per year.  Number of plots (n) where species did occur per treatment is also included (maximum possible n is 5).
DOI: 10.5061/dryad.2d7b0/1
title: Allen et al17EL_Amphibian_reptile_invasion_&_life_history

description: The data file contains data on the status of alien (non-native) amphibian and reptile species at the global scale and their life history traits. In the ReadMe file we provide the basic details on the variables in the datafile. Full details on the protocol for the extraction of the data from the literature, classification of the species, and references underling the data can be found in the Supplementary Information of the Ecology Letters paper (Data collection: SI, Section 1.1; Data references: SI, 4.2 and 4.3).
DOI: 10.5061/dryad.44t2n/1
title: F1 Brood data

description: Family-wise offspring sex ratio data for female Eurema hecabe sampled in North Queensland (2008 and 2009).
DOI: 10.5061/dryad.4nn26/1
title: data file_micro results and vaccine status_17aug16

description: Excel file for Streptococcus pneumoniae carriage isolates showing serotypes, molecular types, antimicrobial susceptibility, and date of collection.  Information on the age, ethnicity, and pneumococcal conjugate vaccine status of study participants from whom the isolates were obtained is provided.
DOI: 10.5061/dryad.4s5r7/1
title: Data Availability

description: Sampling locations and microsatellite genotypes: Dryad
DOI: 10.5061/dryad.524mc/1
title: clip through network-like portion

description: The animation shows the movement of a clip plane orientated parallel to bedding documenting the network or Multina-like portion of the aff. Parahaentzschelinia burrow complex
DOI: 10.5061/dryad.524mc/2
title: Serial vertical cross sections of sample 1

description: The video shows the complete series of vertical cross sections through sample 1 showing the Parahaentzschelinia burrows in the context of the host sediment
DOI: 10.5061/dryad.54527/1
title: microsatellite genotype data

description: Microsatellite genotype data for 139 Pleistodontes imperialis fig wasps collected from Townsville, Australia. The dataset consists of allele lengths for 78 P. imperialis sp. 2 females, 39 P. imperialis sp. 3 females and 22 P. imperialis sp. 4 females at 8 microsatellite loci.
DOI: 10.5061/dryad.5p39s/1
title: Experimental Data - Fischer et al - OIK-03539.R2

description: Data collected during the lab experiment (Raw data).
DOI: 10.5061/dryad.7vj52/2
title: PandaSubSupp

description: Ursid subspecies data file
DOI: 10.5061/dryad.8gm85/1
title: Supplementary Code, Tables, and Figures
DOI: 10.5061/dryad.8gm85/2
title: Alignments

description: Individual gene alignments from six phylogenomic studies.
DOI: 10.5061/dryad.91867/7
title: ASTRAL incomplete dataset, ranked locus subsets

description: The ASTRAL input and output for the summary-coalescent species tree analysis based on the complete dataset. Locus subsets were ranked (i.e. ranked by Tree Certainty score) selected.
DOI: 10.5061/dryad.91867/8
title: Supplementary_Table_1

description: Information on individuals used in the study and sequencing success
DOI: 10.5061/dryad.91867/9
title: Supplementary figures

description: Supplementary figures in order and as described in manuscript
DOI: 10.5061/dryad.96b0h/1
title: Supplementary Tables and Figures

description: This file contains Supplementary Table 1 and Supplementary Figures 1-8.
DOI: 10.5061/dryad.96b0h/2
title: Data archive

description: A gzipped tarred archive that contains the raw data, logfiles, supermatrices, etc.that were needed in the paper and its appendix. Please see the README file for details on this (very large) archive.