cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/jsjnbddhdk.2
title: Data for: A Fast Gamma-Ray Dose Rate Assessment Method for Complex Geometries Based on Stylized Model Reconstruction

description: "experiment 3.2.rar" is the experiments results of part 3.2 of paper. In this file, the .3DS format files are 3dsMax model; txt format files are results of SPK code; mc format files are results of MCNP. "FDConvertFactor.mdb" is the convert factor usd for MCNP. "point kernel data.rar" is the database used in SPK code.
DOI: 10.5061/dryad.17jn0fq/1
title: Vespula data overview

description: Vespula vulgaris nests used in the nest analysis and mitochondrial DNA analysis. Sample name: internal name used to identify samle; Queen cells and worker cells are estimated from queen and worker comb area.;Latitude and longitude give the sampling location in New Zealand or Belgium; "DNA from?" indicates which DNA extraction method was used.
DOI: 10.5061/dryad.3846qt5/1
title: Database - Renal Artery Disease Multidisciplinary Meeting in Lyon, France

description: A multidisciplinary renal artery disease meeting has been conducted every two weeks in a French university hospital starting from April 2013. Patients diagnosed with a renal artery disease had their charts reviewed during a multidisciplinary meeting. For the present study, patients whose chart had been reviewed between April 2013 and February 2015 were included. Patients with a fibromuscular dysplasia were excluded.
DOI: 10.5061/dryad.4sb6383/1
title: Data from: Plant community responses to environmentally-friendly piste management in northeast Iran

description: files description:
Functional_matrice: Provides the trait data for plant species in this study.
piste_offpiste_sp: Plant species matrix of this study.
Scenario2: Phylogenetic tree of plant species in this study. 

contact information: 
Mohammad Bagher Erfanian
b.erfanian@mail.um.ac.ir
DOI: 10.5061/dryad.63mk0ks/9
title: Script2

description: Script2.R contains an R script with code used to conduct phylogenetic simulation analyses.
DOI: 10.5061/dryad.67qh110/1
title: Cover data

description: Observed plant cover data.
DOI: 10.5061/dryad.67qh110/2
title: Experimental design

description: Description of the treatments applied to each plot in each site (type of treatment, species removed, etc.).
DOI: 10.5061/dryad.67qh110/3
title: Data details

description: Description of the columns in the cover and the experimental design datasets.
DOI: 10.5061/dryad.67qh110/4
title: R codes

description: R codes to import the data and recreate the analysis (including tables and figures)
DOI: 10.5061/dryad.6fp82p0/1
title: Hydrogen stable isotope of the soil water during the growing season in the temperate steppe in Inner Mongolia, China_FEB26

description: Hydrogen stable isotope of the soil water during the growing season in the temperate steppe in Inner Mongolia, China
DOI: 10.5061/dryad.8vs71c3/2
title: Mark-Recapture 2011-12

description: Data collected during 2011-12 used for mark-recapture analyses on giraffe weevils.
DOI: 10.5061/dryad.8vs71c3/3
title: Mark-Recapture 2012-13

description: Data collected during 2012-13 used for mark-recapture analyses on giraffe weevils.
DOI: 10.5061/dryad.8vs71c3/4
title: Size assortative mating

description: Data used for size assortative mating analyses for giraffe weevils.
DOI: 10.5061/dryad.913qd93/1
title: 1. Landscape composition data at 1500 m radius

description: Landscape composition data for the 24 selected sites at a 1500 m radius.
DOI: 10.5061/dryad.913qd93/2
title: 2. Neonicotinoid residues detected in collected pollen samples

description: Neonicotinoid residues (thiamethoxam, clothianidin, and imidacloprid) detected in honey bee-collected pollen samples at both the sample and trapping event scale.
DOI: 10.5061/dryad.913qd93/3
title: 3. Pollen composition data

description: Identity and proportion data for the honey bee pollen loads
DOI: 10.5061/dryad.913qd93/4
title: 4. Combined analysis file for impact of landscape and composition

description: Analysis file combining site location, landscape composition, pollen composition, and neonicotinoid residue data.
DOI: 10.5061/dryad.913qd93/5
title: 5. Analysis file for individual plant species composition on neonicotinoid concentration

description: Analysis file containing neonicotinoid residue data and plant species composition of pollen load data.
DOI: 10.5061/dryad.98rr457/1
title: Carbon and nitrogen content of hay addition

description: Three batches of hay were applied to the hay treatments in 2012. Two samples from each batch were analyzed for carbon and nitrogen content at the Stable Isotope Facility at the University of Wyoming in 2016. See metadata file for variable descriptions.
DOI: 10.5061/dryad.98rr457/2
title: Carbon and nitrogen content of sagebrush leaders

description: Dried sagebrush leaders were ground and submitted to the University of Wyoming Stable Isotope Facility in December 2014. See metadata file for variable descriptions.
DOI: 10.5061/dryad.98rr457/3
title: Sagebrush inflorescence length

description: The length of sagebrush inflorescences was collected in fall 2014. See metadata file for variable descriptions.
DOI: 10.5061/dryad.98rr457/4
title: Sagebrush leader length

description: Annual growth, in the form of sagebrush leaders, was clipped in fall 2014.
DOI: 10.5061/dryad.98rr457/5
title: Sagebrush plant community

description: Plant community data and species identification occurred in late summer 2014. See metadata file for variable descriptions.
DOI: 10.5061/dryad.98rr457/6
title: Soil nitrogen availability

description: For the 2012-2013 and 2014-2015 soil nitrogen data, plant root simulator (PRS) probes were used to evaluate soil nitrogen availability. PRS data was received directly from Western Agriculture.
DOI: 10.5061/dryad.bc72mt7/2
title: Mean soil chemical properties content of three old-growth forests assessed with a space-for-time substitution approach

description: Soil samples were collected within ten plots in three old-growth forests. The data presented in the file are the mean content of soil properties of the three old-growth forests studied. Abbreviations: C_ph = pH H2O; C_Al_trocavel = Exchangeable Al (cmolc kg-1); C_Ca_Mg = Exchangeable Ca+Mg (cmolc kg-1); C_P_ppm = Available P  (mg kg-1); C_K_cmolc = Exchangeable K (cmolc kg-1)
DOI: 10.5061/dryad.bc72mt7/3
title: Mean soil chemical properties content of three old-growth forests and 13 second-growth forests assessed with a space-for-time substitution approach

description: Soil samples were collected within ten plots in three old-growth forests (mature) and 13 second-growth forests at different ages. The data presented in the file are the mean content of soil properties of each forest studied. Abbreviations: area_number = ID or number of the fragment; stage = successional stage of the fragment; ph = pH H2O; Al_trocavel = Exchangeable Al (cmolc kg-1); Ca_Mg = Exchangeable Ca+Mg (cmolc kg-1); P_ppm = Available P  (mg kg-1); K_cmolc = Exchangeable K (cmolc kg-1)
DOI: 10.5061/dryad.bc72mt7/4
title: Mean soil chemical properties content of 13 second-growth forests assessed with a space-for-time substitution approach

description: Soil samples were collected within ten plots in 13 second-growth forests at different ages. The data presented in the file are the mean content of soil properties of each second-growth forest studied. Abbreviations: area_number = ID or number of the fragment; age = second-growth forest age; ph = pH H2O; Al_trocavel = Exchangeable Al (cmolc kg-1); Ca_Mg = Exchangeable Ca+Mg (cmolc kg-1); P_ppm = Available P  (mg kg-1); K_cmolc = Exchangeable K(cmolc kg-1)
DOI: 10.5061/dryad.f7783vg/1
title: Pompano data sheets csv

description: contains length and weight progression data, condition factor, water quality parameter, harvest and survival and length-weight key for length weight relationship
DOI: 10.5061/dryad.ff045t7/1
title: data_procb_trakin

description: This file contains the data ordered by figure from the main text. All sheets except "genetic distances" contain conjugation data ordered by figure, including identity of the donor and recipient strains, densities of donor, recipient and transconjugants (CFUs per mL) obtained by selective plating, and computed conjugation rates. "genetic distances" contains a matrix of pairwise genetic distances for E. coli isolates, obtained with 3 genes or 2 genes as described in the methods.
DOI: 10.5061/dryad.k67cg66/10
title: Figure S2
DOI: 10.5061/dryad.k67cg66/9
title: Figure S1 B
DOI: 10.5061/dryad.kc57603/1
title: Pied flycatcher melanin oxidative stress data

description: The file contains two data sheets "chicks" and "males". Measurements of SOD, CAT, GP, GSHratio, GSHtotal, CARB and GST as indicators of oxidative stress are assigned to each individual. Temperature measure is an average temperature value for nestling period (day 4 to day 11) and individually assigned for each box.
DOI: 10.5061/dryad.kk2h14b/1
title: Raw data used in the analysis

description: This is a raw data underlying the findings reported in a submitted manuscript.
DOI: 10.5061/dryad.m3t6764/1
title: Strayer_etal_dreissena_fig1_data

description: File contains the data used in Fig. 1 of the main paper
DOI: 10.5061/dryad.m3t6764/2
title: strayer_etal_dreissena_fig2

description: this file contains the data used to produce Fig. 2 in the main paper
DOI: 10.5061/dryad.m3t6764/3
title: strayer_etal_dreissena_fig3

description: this file contains the data used to produce Fig. 3 in the main paper
DOI: 10.5061/dryad.m3t6764/4
title: strayer_etal_dreissena_fig4

description: this file contains the data used to produce Fig. 4 in the main paper
DOI: 10.5061/dryad.m3t6764/5
title: strayer_etal_dreissena_fig5

description: this file contains the data used to produce Fig. 5 in the main paper
DOI: 10.5061/dryad.m3t6764/6
title: strayer_etal_dreissena_figsS1+S2+S3

description: this file contains the data used to produce Figures S1, S2, and S3 in Supplementary Materials
DOI: 10.5061/dryad.m3t6764/7
title: strayer_etal_dreissena_figsS4+S5

description: this file contains the data used to produce Figures S4 and S5 in Supplementary Materials
DOI: 10.5061/dryad.m5j1rs3/1
title: data for soil microorganism

description: the data was for the microorganism of two kinds of soil(purple soil and paddy soil) in southern China
DOI: 10.5061/dryad.mn12jv2/1
title: gibbon_recordings

description: Song data from three male gibbons.
- Gibbon 1: H. agilis, age: 44+ y
- Gibbon 2: Hybrid of H. agilis and H. albibarbis, age: 19
- Gibbon 3: Hybrid of H. agilis and H. albibarbis, age: 18
No identification of singers.

Recorded at Primate Research Institute, Kyoto Univ.

2 distinct sets of data.
- training_data: recorded on Aug. 10-19, 2017, between 6:00am and 10:00am.
- test_data: recorded on Sep. 1-30, 2017, between 6:00am and 10:00am.
DOI: 10.5061/dryad.mv3276v/1
title: Akaganeite nanorices deposited muscovite mica surfaces detailed data (.docx format)
DOI: 10.5061/dryad.mv3276v/2
title: Akaganeite nanorices deposited muscovite mica surfaces detailed data (.pdf format)
DOI: 10.5061/dryad.n6d4mm5/2
title: sensitivity_analysis
DOI: 10.5061/dryad.n6d4mm5/3
title: STACKS_and_QCfilter
DOI: 10.5061/dryad.p2gs002/1
title: Supplementary Appendix S1

description: Vouchers and GenBank accession numbers.
DOI: 10.5061/dryad.p2gs002/2
title: Supplementary Appendix S2

description: Aligned data matrix.
DOI: 10.5061/dryad.p2gs002/3
title: Supplementary Appendix S3

description: Visualization KML-file to be used in Google Earth.
DOI: 10.5061/dryad.p2gs002/5
title: Supplementary Appendix S5

description: Avi-film showing Imperial-pigeon in New Caledonia swallowing Planchonella endlicheri fruit.
DOI: 10.5061/dryad.p2gs002/6
title: Supplementary Appendix S4
DOI: 10.5061/dryad.p39d12d/1
title: Alignments, data tables, and trees used for analyses

description: This repository accompanies the manuscript "Social mating system, body mass, and molecular evolution interact to predict diversification in birds"
The data used for statistical analyses are contained in the genera.data.tables.and.trees.Rdata file, and can be loaded into R using the load function.

Once the data have been loaded. The following data frame elements will be found:

datmit354trans contains the data with molecular rates estimated from mitochondrial loci.
datnuc173trans contains the data with molecular rates estimated from nuclear loci.
datmix363 contains data of only three variables for the combination of genera for which any type of molecular data were included in other analyses.
tr173, tr352, and tr363 contain maximum clade credibility trees used for the main phylogenetic regression analyses. tr173.100 and tr352.100 contain the sample of posterior trees from Jetz et al. (2012) used for performing replicate phylogenetic regression analyses.
The file linear.model.summaries.100trees.Rdata contains the summaries of the 100 replicate phylogenetic regressions performed for each of the 14 models examined in the study. The names of each of the models corresponds to the names used in the supplementary infromation tables.

This repository also includes the sequence alignments used for estimating molecular rates, and the species-specific data set of mating system and mass from which genus-level values were calculated.

For enquiries contact: Maider Iglesias (miglesias15@gmail.com) or David A. Duchene (david.duchene@sydney.edu.au)
DOI: 10.5061/dryad.q5846sq/1
title: Accession numbers and morphological data

description: This file contains the accession numbers of the specimens used in the study as well as the underlying morphological data used in the analyses.
DOI: 10.5061/dryad.q5846sq/2
title: trees file n100

description: This file contains 100 phylogenetic trees that were used in the study.
DOI: 10.5061/dryad.qs41mg4/2
title: Financial COIs of clinicians
DOI: 10.5061/dryad.sp37rb4/1
title: Shorebird_MetabolicRates_Thomas_Swanson

description: Metabolic rates, body masses and fat scores for shorebirds during migration periods
DOI: 10.5061/dryad.t35r32q/1
title: Iraqi_cattle
DOI: 10.5061/dryad.t35r32q/2
title: Iraqi_cattle
DOI: 10.5061/dryad.tg8nn49/1
title: Data_for_Li_et_al._Context-dependent_strategies_of_food_allocation_among_offspring_in_a_facultative_cooperative_breeder

description: The file contains all data for nestling provisioning rates, nestling mass and adult food allocation among nestlings during each feeding event.
DOI: 10.5061/dryad.v3t16d8/1
title: final_filtered_vcf_file_Stacks

description: This is the final cleaned and filtered VCF file used for downstream population genetic and landscape genetic analyses. There are 315 samples and 12,856 single nucleotide polymorphisms generated using genotyping by sequencing (GBS; Illumina). This file was generating by assembling GBS data using the Stacks (2.1) pipeline on a high-throughput computing cluster (HTCondor). Samples: 295, 297, 298, 299, 300, 301, 303, 305, 306, 308, 309, 312, 313, 314 were removed prior to final analyses as they were technical replicates. Samples: 34, 36, 40, 43 were randomly selected from population 4033 and removed to balance sample sizes across populations.  See published paper (Drift happens: Molecular genetic diversity and differentiation among populations of jewelweed (Impatiens capensis Meerb.) reflect fragmentation of floodplain forests, Toczydlowski, Rachel, Waller, Donald) Methods section and Table S2 for more details about bioinformatic filtering and Stacks assembly parameters.
DOI: 10.5061/dryad.v3t16d8/3
title: final_filtered_vcf_file_ipyrad

description: This is the final cleaned and filtered VCF file output from the program ipyrad for our data (https://ipyrad.readthedocs.io/; Eaton, D. A. (2014). PyRAD: assembly of de novo RADseq loci for phylogenetic analyses. Bioinformatics, 30(13), 1844-1849.). There are 315 samples and 4,215 single nucleotide polymorphisms generated using genotyping by sequencing (GBS; Illumina). This file was generating by assembling GBS data using the ipyrad (0.7.13) pipeline on a high-throughput computing cluster (HTCondor). Samples: 295, 297, 298, 299, 300, 301, 303, 305, 306, 308, 309, 312, 313, 314 were removed prior to final analyses as they were technical replicates. Samples: 34, 36, 40, 43 were randomly selected from population 4033 and removed to balance sample sizes across populations.  See published paper (Drift happens: Molecular genetic diversity and differentiation among populations of jewelweed (Impatiens capensis Meerb.) reflect fragmentation of floodplain forests, Toczydlowski, Rachel, Waller, Donald) Methods section and Table S2 for more details about bioinformatic filtering and Stacks assembly parameters. We assembled the GBS data in two different programs and compared the outputs to test the robustness of our de novo assembly (see Supplemental materials for the published paper). We used Stacks output for all population genetic and landscape genetic analyses published in the paper.
DOI: 10.5061/dryad.vf86jb2/1
title: eDNA results 2014-2017

description: eDNA results from 2014-2017 in Haldenvassdraget watercourse.
DOI: 10.5061/dryad.vf86jb2/2
title: eDNA results 2015 - Statistical analysis

description: eDNA results from 2015 used in statistical analysis
DOI: 10.5061/dryad.vf86jb2/3
title: R_script_CorrelationBetweenShortTimeSeries_eDNA_Snaphot

description: R-script for statistical analysis
DOI: 10.5061/dryad.vg6jp14/1
title: All data_English
DOI: 10.17632/6682jtjpv9.1
title: Data for: Study on the site effects of seismic stations in Sichuan, China

description: In this file, sheet 1 is the earthquake informations used in GIT inversion. Sheet 2 is the output.
DOI: 10.17632/khswjp65b4.1
title: Data for: (НЕ)АДЕКВАТНОСТ НА ПЕНСИИТЕ В БЪЛГАРИЯ (Pension (In)adequacy in Bulgaria)

description: Theoretical replacement rates (2042) Various insurable income scenarios
DOI: 10.17632/vnydydjg7g.1
title: Data for: A two-layer numerical model for simulating the frontal plowing effect of flow-like landslides
DOI: 10.17632/ynsw899dxv.1
title: Data for: Directional hedonic thresholds for sodium concentration in hamburger
DOI: 10.5061/dryad.106q6g6/1
title: Figure S1

description: Virus Proteomic Tree of all dsDNA viruses in the Virus-Host DB as computed by VIPTree (May 2018)
DOI: 10.5061/dryad.1g6vm34/1
title: Data of patients before, three months and one year after bariatric surgery

description: Anthropometric parameters, blood pressure values  and ophthalmic parameters registered before (baseline), after 3 months and one year after bariatric surgery
DOI: 10.5061/dryad.3q11m8g/1
title: bdtree results

description: The results of simulations for testing rate of unusable node and utility of network indices. The file includes means and variances of the ratio of unusable nodes and the three indices LD, ALW and EI for each q value, number of taxa, and number of areas. The number of simulations in which the ALW could not be calculated was also recorded in the file.
DOI: 10.5061/dryad.3q11m8g/2
title: data and tree

description: Phylogenetic trees, age and biogeographical data for terrestrial crocodyliforms, terrestrial turtles, non-avian dinosaurs, avians, and pterosaurs that were used to construct biogeographical networks.
DOI: 10.5061/dryad.3q11m8g/3
title: rcode0801

description: Code for R (R Development Core Team 2017) that calculates an adjacency matrix from a phylogenetic tree and the biogeographical regions of all terminal taxa. If age information is provided for all terminal taxa, then this code can conduct time slicing.
DOI: 10.5061/dryad.3q11m8g/4
title: results of taxa dropping simulations

description: Results of simulation that test the effect of taxa pruning from a phylogenetic tree on the constructed biogeographical network. These taxa pruning correspond to sampling and taphonomic biases on fossil taxa.
DOI: 10.5061/dryad.3q11m8g/5
title: Fig. S5

description: An animation of 3D scatter plot of mean ALW.
DOI: 10.5061/dryad.3q11m8g/6
title: Fig. S7

description: An animation of 3D scatter plot of mean EI.
DOI: 10.5061/dryad.3q11m8g/7
title: Fig S3

description: An animation of 3D scatter plot of mean LD.
DOI: 10.5061/dryad.3q11m8g/8
title: Fig. S1

description: An animation of 3D scatter plot of mean ration of unusable nodes.
DOI: 10.5061/dryad.3q11m8g/9
title: Fig. S6

description: An animation of 3D scatter plot of variance of ALW.
DOI: 10.5061/dryad.40vp30d/1
title: Eulimno clade tree (nwk)
DOI: 10.5061/dryad.40vp30d/2
title: Hyall clade tree (nwk)
DOI: 10.5061/dryad.40vp30d/3
title: Acantho clade tree (nwk)
DOI: 10.5061/dryad.40vp30d/4
title: Micro clade tree (nwk)
DOI: 10.5061/dryad.40vp30d/5
title: Pallasea clade tree (nwk)
DOI: 10.5061/dryad.40vp30d/6
title: Eulimno clade substitution statistics

description: Column names: cog, branch, #nonsyn_subst, #syn_subst, #nonsyn_sites, #syn_sites
DOI: 10.5061/dryad.40vp30d/7
title: Acantho clade substitutions statistics

description: Column names: cog, branch, #nonsyn_subst, #syn_subst, #nonsyn_sites, #syn_sites
DOI: 10.5061/dryad.67qh110/5
title: Phylogenetic tree of the Rouge Park Plants

description: Phylogenetic tree of the Rouge Park Plants adapted from Jin, L. (2015). A Spatio-temporal Phylogenetic Approach to Community Ecology. Thesis. University of Toronto. (URI: http://hdl.handle.net/1807/70854)
DOI: 10.5061/dryad.68pv736/1
title: Figure 4 in color

description: Figure 4 with color images
DOI: 10.5061/dryad.6h0k74n/1
title: Dataset-Repetitive desiccation events weaken a salt marsh mutualism

description: This dataset contains the data from a field experiment that was conducted from April 2014 till August 2014. We crossed the presence of mussels and snails with a desiccation treatment to test the hypotheses that: 1) multiple chemical stressors accumulate after each successive desiccation event, 2) mussels facilitate cordgrass by mitigating chemical stressors, and 3) snails reduce cordgrass’ resilience to withstand these stressors over time. The first data sheet shows data on cordgrass growth, mussels, chemical porewater and plant characteristics averaged per experimental plot. The second data sheet displays chemical porewater concentrations in four consecutive months. The third data sheet shows data about temperature en relative humidity.
DOI: 10.5061/dryad.7hs34mj/1
title: Supplementary Figure 1: Structurama results

description: Results from Structurama analyses
DOI: 10.5061/dryad.7hs34mj/2
title: Supplementary Figure 2: consensus gene trees

description: Majority-rule consensus gene trees for 11 nuclear genes
DOI: 10.5061/dryad.7hs34mj/3
title: Supplementary Figure 3: cytb gene tree

description: Maximum clade credibility cytb gene tree
DOI: 10.5061/dryad.7hs34mj/4
title: Supplementary Table 1: BPP results

description: Results from BPP analyses for alternative splits of L. gentilis and L. triangulum
DOI: 10.5061/dryad.7hs34mj/5
title: Supplementary Table 2: Lampropeltis taxonomy

description: Taxonomy of Lampropeltis species
DOI: 10.5061/dryad.7hs34mj/6
title: Online Appendix 1

description: Details for Structurama analyses
DOI: 10.5061/dryad.98rr457/14
title: Data Analysis in a Knitted PDF (updated)

description: Knitted PDF of the R Markdown file used to conduct data analysis and figure creation. New version finalized on May 6, 2019.
DOI: 10.5061/dryad.98rr457/15
title: Analysis Code (updated)

description: R code for all data analysis and figure creation in Rmd format. New version finalized on May 6, 2019.
DOI: 10.5061/dryad.98rr457/7
title: Soil texture

description: Soil texture was assessed using the a modified hydrometer method. For variable descriptions see metadata file.
DOI: 10.5061/dryad.98rr457/8
title: Soil trace gas

description: Trace gas was measured in 2013 and examined CO2, CH4, and N2O.
DOI: 10.5061/dryad.98rr457/9
title: Project Description and Metadata
DOI: 10.5061/dryad.b3s4v0g/1
title: Pelagosaurus CT data

description: Specimen: Pelagosaurus typus BRLSI M1413. Scanned in a Nikon XT H 225ST lCT scanner. Scan parameters: 210 kV, 130 lA, 27.3 W, 0.5 mm copper filter, 1 s exposure time, no binning, ultrafocus reflection target, 3141 projections, 2 frames per projection. Scanned in two parts. Scan data were joined in VGStudio Max v2. The CT data consists of 3419 slices of 0.0956 mm pixel size and 0.0956 mm thickness.