cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.jc14081/1
title: Object Category Tuning Curves and Gradients

description: This file contains tuning curves made from responses (to regular images) to the 20 object categories used. Four types of gradient values are also included defined according to images used (1=merged, 2=array) and classifier (binary or 1000-way)
DOI: 10.5061/dryad.jc14081/2
title: Binary Object Classifiers

description: Tensorflow weights for each of the 20 binary classifiers (1 for each category) that are used to replace the original 1000-way classifier
DOI: 10.5061/dryad.jc14081/3
title: Performance on Object Detection Tasks

description: These files contain true positive and true negative rates for attention applied in different ways to each of 20 categories
DOI: 10.5061/dryad.mk0n0h4/1
title: Beetle and yeast data used for analyses
DOI: 10.5061/dryad.p307vp1/4
title: desiccation (Fig 2)

description: Data on heat tolerance as a function of desiccation
DOI: 10.5061/dryad.p307vp1/5
title: water content (Fig 3A)

description: Water content in flies exposed to ramping assay under different conditions (vial types)
DOI: 10.5061/dryad.p307vp1/6
title: water content (Fig 3B)

description: Water content in flies exposed to desiccation for different amounts of time
DOI: 10.5061/dryad.p307vp1/7
title: lipid content (Fig 3C)

description: Lipid content in flies exposed to starvation for different amounts of time
DOI: 10.5061/dryad.pr06nk2/1
title: Prey-specific impact of cold pre-exposure

description: Number of prey killed and consumed, and number of eggs laid by female Gaeolaelaps aculeifer when feeding on Folsomia candida or Protaphorura fimata at 10 or 20 degrees Celsius after predator and/or prey have been pre-exposed to either temperature.
DOI: 10.5061/dryad.rr0v479/1
title: Iserbyt et al. 2018 Ecol&Evol

description: This file includes two datasets. The first one (Inside_outside) supports the density plots in Figure 2. The second one (Validation) supports the validation in Figure 3 and Table 1.
DOI: 10.5061/dryad.vk13np4/1
title: Bivouac_survey

description: Data collected from a survey of bivouac site choices in Guanacaste and Monteverde. This includes bivouac exposure and whether the bivouac was above-ground or in a cavity under-ground.
DOI: 10.5061/dryad.vk13np4/2
title: Brood_Conditions

description: Mean and standard deviation of each bivouac's temperature and relative humidity, as well as temperature and relative humidity recorded at an ambient site on the forest floor 1 m from the bivouac. "NA" entered for relative humidity descriptors in cases where only temperature was measured. All temperatures were recorded using i-button data loggers.
DOI: 10.5061/dryad.vk13np4/3
title: Empty_site_conditions

description: Mean and standard deviation of each empty bivouac site's temperature and relative humidity, as well as temperature and relative humidity recorded simultaneously at an ambient site on the forest floor 1 m from the empty bivouac site. "NA" entered for relative humidity descriptors in cases where only temperature was measured. All temperatures were recorded using i-button data loggers.
DOI: 10.5061/dryad.11j4k4v/1
title: Barker_etal_2019_Crosses

description: Growth measurements of plants produced by controlled crosses.
DOI: 10.5061/dryad.11j4k4v/2
title: Barker_etal_2019_LiteratureSurvey

description: Data from survey of the literature for conditions under which admixture is observed in invasive species.
DOI: 10.5061/dryad.11j4k4v/3
title: Barker_etal_2019_seqDivergenceStacks

description: Perl script to obtain sequence divergence between RAD sequences from two populations.
DOI: 10.5061/dryad.1723h44/2
title: Hargreaves2019SciAdv_data2 seedpredation perseedtypeXcagetreatXsite & covariates

description: Mean seed predation intensity per site (for each seed type) and environmental covariates (climate, productivity, vertebrate richness) tested in structural equation models.
DOI: 10.5061/dryad.2sr6316/1
title: Development Data

description: Raw development time data for Drosophila melanogaster raised with all possible combinations of the five gut bacterial species examined in this study.
DOI: 10.5061/dryad.2sr6316/2
title: Daily Fecundity Data

description: Raw daily fecundity data for Drosophila melanogaster raised with all possible combinations of the five gut bacterial species examined in this study.
DOI: 10.5061/dryad.2sr6316/3
title: Survival Data

description: Raw survival data for Drosophila melanogaster raised with all possible combinations of the five gut bacterial species examined in this study.
DOI: 10.5061/dryad.2sr6316/4
title: Fly Gut CFU Data

description: Raw bacterial load data for the guts of Drosophila melanogaster raised with all possible combinations of the five gut bacterial species examined in this study.
DOI: 10.5061/dryad.2sr6316/5
title: Development Time Data Under Different Conditions

description: Development time data for Drosophila melanogaster under different experimental conditions and fed various combinations of five species of gut bacteria.
DOI: 10.5061/dryad.2sr6316/6
title: Survival Data for Antibiotic Treatments

description: Female survival data for Drosophila melanogaster under different experimental conditions and fed various combinations of five species of gut bacteria.
DOI: 10.5061/dryad.2sr6316/7
title: Fecundity Data for Antibiotic Treatments

description: Fecundity data for Drosophila melanogaster under different experimental conditions and fed various combinations of five species of gut bacteria.
DOI: 10.5061/dryad.33m546g/1
title: Egg carotenoid content

description: Egg carotenoid content in ug/g for unfertilized eggs from Chinook salmon females
DOI: 10.5061/dryad.33m546g/2
title: Survival to eyed-egg stage

description: Data for survival from fertilization to eyed-egg stage. All eggs were counted (dead and alive) to calculate survival for each cell (replicates for each cross). Data were converted to binary data for analyses. A total of 56 families were used in this analysis.
DOI: 10.5061/dryad.3r0h560/1
title: data

description: Simulation input parameters, output configurations, and system preparation scripts needed to reproduce simulations performed in the main text. In addition, the processed data and instructions on the data was generated for each figure is included.
DOI: 10.5061/dryad.4053d31/1
title: Full length TE seqeunces of spinach

description: These data were analyzed as a part of the following publicaiton:
" The landscape of transposable elements and satellite DNAs in the genome of a dioecious plant spinach (Spinacia oleracea L.)"
A separate fasta file is available in Dryad. Each sequence in the file represents a full-length TE analyis using the methods described in the paper. The header for each sequence includes a title followed by the annotation for that particular element.
DOI: 10.5061/dryad.54vb7f2/1
title: Persian horse genotype data, plink .bed file

description: Genotype data for Persian horse samples, .bed file for plink file set
DOI: 10.5061/dryad.54vb7f2/2
title: Persian horse genotype data, plink .bim file

description: Genotype data for Persian horse samples, .bim for plink file set
DOI: 10.5061/dryad.54vb7f2/3
title: Persian horse genotype data, plink .fam file

description: Genotype data for Persian horse samples, .fam file for plink file set
DOI: 10.5061/dryad.55p11md/7
title: Data_Figure_S2_Rarefaction_curve_global
DOI: 10.5061/dryad.5p58q34/5
title: Zea_mays.MSU.GO.terms.gene.txt

description: Gene Ontology term assignments for AGPv4 genes identified from InterPro hits
DOI: 10.5061/dryad.5p58q34/6
title: Zea_mays.OrthoFinder.by.orthogroup.csv

description: Orthologous and paralogous groups identified by OrthoFinder listed by OrthoGroup ID
DOI: 10.5061/dryad.5sg5082/1
title: NOGO_SNP_Genotyping

description: This "Nogo_SNP_Genotyping.zip" file contains the raw data from the genotyping of 10 ancestry informative SNPs from Geraldes et al. 2018. Within, there are twenty files. Each contains the results from one run on a Viia7 Real-Time PCR system. For each SNP two plates were genotyped. The SNP genotyping results reported in Supporting Table 6 and visualized in Supporting Figure 2 of Geraldes et al. 2018, were obtained by plotting columns "Allele 1 Delta Rn" and "Allele 2 Delta Rn" from the two files for each SNP. The column "Sample Name" in these files corresponds to the column "Irwin Code" in Supporting Table 1 of Geraldes et al. 2018.
DOI: 10.5061/dryad.654vb4g/1
title: Torok-et-al-SREP-18-20675A-species-cover

description: Species' percentage cover by site (U1, L1, U2, L2), plot (1-5) and year (1-12)
DOI: 10.5061/dryad.654vb4g/2
title: Torok-et-al-SREP-18-20675A-species-traits

description: Traits of species used in the analyses. Abbreviations: ClonSpread - Clonal spreading ability; FlowStart - Starting month of flowering; FlowPeriod - Number of months of flowering; LDMC - Leaf dry matter content; LDW - Lead dry weight; SLA - Specific leaf area; SW - Thousand seed weight; TermVel - Terminal velocity; SBT - Seed bank type; WindPoll - Wind pollination; InsectPoll - Insect pollination; SelfPoll - Self-pollination. For further detailes and data sources see the original publication.
DOI: 10.5061/dryad.69f5vh2/1
title: avian_cliff_communities_dataset

description: Data was collected at rock climbing formations in Boulder, CO in 2015. Please view the README for more details.
DOI: 10.5061/dryad.6jr5797/2
title: Doi_2018-RSOS

description: Sheet1. Carbon (13C, ‰) and nitrogen (15N, ‰) isotopes of dominant zooplankton species used to calculate the NND of species.         Sheet2. Environmental factors of the 14 ponds used in this study. Log TP and Chl-a indicate log-transformed total phosphorus and chlorophyll a of surface water, respectively.      Sheet3 Biomass (µg L-1) of dominant zooplankton species. “Fish” indicates presence (P) or absence (0) of plankton-feeding fish in the pond.
DOI: 10.5061/dryad.7r7812c/1
title: BMA files of analyzed viral RNAs and the reference squence

description: The compressed file contains BAM files of the sequencing reads mapped to the ZIKV reference genome NC_012532 and the reference genome in FASTA format. The file names of the BAM files follow the virus ID listed in the Table 3 of the manuscript.
DOI: 10.5061/dryad.8fg6664/1
title: Hargitai-2018JAV-Eggshell-spotting-pattern-Data

description: Detailed information is in the xls file in the ReadMe worksheet.
DOI: 10.5061/dryad.cb43g0n/10
title: broadcast sequence
DOI: 10.5061/dryad.cb43g0n/11
title: hotmap figures
DOI: 10.5061/dryad.cb43g0n/3
title: raw_h_data
DOI: 10.5061/dryad.cb43g0n/4
title: brown kiwi male
DOI: 10.5061/dryad.cb43g0n/5
title: lsk_female_20100817_13_T06
DOI: 10.5061/dryad.cb43g0n/6
title: lsk_male_20100221_12_T13
DOI: 10.5061/dryad.cb43g0n/7
title: ruru_trill-weow_1031
DOI: 10.5061/dryad.cb43g0n/8
title: kiwi_male-female_duet_I-1012
DOI: 10.5061/dryad.cb43g0n/9
title: 4brownkiwi_female
DOI: 10.5061/dryad.cb76d28/1
title: Triangle Island tick chick growth measures (1996-2007)

description: Morphological measures (mass, wing length) of chicks of two seabird species nesting on Triangle Island, British Columbia, 1996 to 2007. Data includes day of year, hatch day, age, counts of number of ticks found during each burrow check, and whether chick fledged (1 = fledged, 0 = fledged).
DOI: 10.5061/dryad.db4dt3t/10
title: Suppl. Fig. 10. ITS indels tree

description: Maximum likelihood topology based ITS indels alone, with parsimony/likelihood bootstrap percentages for every branch with &gt;50% parsimony or ML bootstrap. Branches with &gt;85% parsimony bootstrap support are emphasized with bold lines. A dash (-) indicates &lt;50% bootstrap.
DOI: 10.5061/dryad.db4dt3t/11
title: Suppl. Fig. 11. morphology tree

description: Maximum likelihood topology based on morphology alone, with parsimony/likelihood bootstrap percentages for every branch with &gt;50% parsimony or ML bootstrap. Branches with &gt;85% parsimony bootstrap support are emphasized with bold lines. A dash (-) indicates &lt;50% bootstrap.
DOI: 10.5061/dryad.db4dt3t/5
title: Suppl. Fig. 5. rps16 tree

description: Maximum likelihood topology based on rps16 sequence data alone, with parsimony/likelihood bootstrap percentages for every branch with &gt;50% parsimony or ML bootstrap. Branches with &gt;85% parsimony bootstrap support are emphasized with bold lines. A dash (-) indicates &lt;50% bootstrap.
DOI: 10.5061/dryad.db4dt3t/6
title: Suppl. Fig. 6. rps16 indels tree

description: Maximum likelihood topology based on rps16 indels alone, with parsimony/likelihood bootstrap percentages for every branch with &gt;50% parsimony or ML bootstrap. Branches with &gt;85% parsimony bootstrap support are emphasized with bold lines. A dash (-) indicates &lt;50% bootstrap.
DOI: 10.5061/dryad.db4dt3t/7
title: Suppl. Fig. 7. ETS tree

description: Maximum likelihood topology based on ETS-1f sequence data alone, with parsimony/likelihood bootstrap percentages for every branch with &gt;50% parsimony or ML bootstrap. Branches with &gt;85% parsimony bootstrap support are emphasized with bold lines. A dash (-) indicates &lt;50% bootstrap.
DOI: 10.5061/dryad.db4dt3t/8
title: Suppl. Fig. 8. ETS indels tree

description: Maximum likelihood topology based on ETS-1f indels alone, with parsimony/likelihood bootstrap percentages for every branch with &gt;50% parsimony or ML bootstrap. Branches with &gt;85% parsimony bootstrap support are emphasized with bold lines. A dash (-) indicates &lt;50% bootstrap.
DOI: 10.5061/dryad.db4dt3t/9
title: Suppl. Fig. 9. ITS tree

description: Maximum likelihood topology based on ITS sequence data alone, with parsimony/likelihood bootstrap percentages for every branch with &gt;50% parsimony or ML bootstrap. Branches with &gt;85% parsimony bootstrap support are emphasized with bold lines. A dash (-) indicates &lt;50% bootstrap.
DOI: 10.5061/dryad.g63c748/1
title: README
DOI: 10.5061/dryad.g63c748/2
title: Phylogenomic_analysis
DOI: 10.5061/dryad.g63c748/3
title: Annotations
DOI: 10.5061/dryad.h8m74/10
title: \TCGA Genomic Data for "Genomic Region Detection via Spatial Convex Clustering" Part 09

description: Part 09 for TCGA Genomic Data
DOI: 10.5061/dryad.h8m74/11
title: TCGA Genomic Data for "Genomic Region Detection via Spatial Convex Clustering" Part 10

description: Part 10 for TCGA Genomic Data
DOI: 10.5061/dryad.h8m74/12
title: TCGA Genomic Data for "Genomic Region Detection via Spatial Convex Clustering" Part 11

description: Part 11 for TCGA Genomic Data
DOI: 10.5061/dryad.h8m74/13
title: TCGA Genomic Data for "Genomic Region Detection via Spatial Convex Clustering" Part 12

description: Part 12 for TCGA Genomic Data
DOI: 10.5061/dryad.h8m74/14
title: TCGA Genomic Data for "Genomic Region Detection via Spatial Convex Clustering" Part 13

description: Part 13 for TCGA Genomic Data
DOI: 10.5061/dryad.h8m74/15
title: TCGA Genomic Data for "Genomic Region Detection via Spatial Convex Clustering" Part 14

description: Part 14 for TCGA Genomic Data
DOI: 10.5061/dryad.hg19c6n/1
title: Hoecker_and_Higuera_2019_LandscapeEcology

description: This repository contains data and code associated with:

Hoecker TJ, Higuera PE. 2019. Forest succession and climate variability interacted to control fire activity over the last four centuries in an Alaskan boreal forest. *Landscape Ecology* DOI: doi.org/10.1007/s10980-018-00766-8
DOI: 10.5061/dryad.jc14081/4
title: CNN weights

description: The tensorflow weights for the full VGG-16 convolutional neural network used in this study (originally provided by Davi Frossard)
DOI: 10.5061/dryad.jc14081/5
title: Orientation Binary Classifiers

description: Tensorflow weights that replace final 1000-way classifier with a series of binary classifiers for different orientations
DOI: 10.5061/dryad.jc14081/6
title: Orientation Tuning Curves and Gradients

description: Tuning curve values and binary detection gradient values for oriented grating stimuli
DOI: 10.5061/dryad.jc14081/7
title: Performance on Orientation Detection Tasks

description: Files containing true positive and true negative performance values for attention applied in different ways
DOI: 10.5061/dryad.jc14081/8
title: Orientation Task Images

description: This file contains images with two orientated stimuli in them along with information on the stimuli locations, orientations, and color
DOI: 10.5061/dryad.jc14081/9
title: Images for Object task

description: Merged and Array object category images
DOI: 10.5061/dryad.kb8203f/1
title: SCRuM Content validation results first part

description: Results for the logical or content validation of the SCRuM test battery using local and international rugby experts
DOI: 10.5061/dryad.kb8203f/2
title: SCRuM Content validation results second part

description: Results for the second round content validation study using local and international rugby experts
DOI: 10.5061/dryad.n0p44hn/1
title: Concatenated nexus file for BEAST (outgroup data set)

description: Data file used for BEAST analysis, including D. carolinensis outgroup individuals.
DOI: 10.5061/dryad.n0p44hn/2
title: VCF file containing SNPs for DAPC (ingroup data set)

description: Single nucleotide polymorphism data set with only in-group individuals, used in DAPC and for calculating f-statistics. (See "Population assignments" file for corresponding population data for individual IDs.)
DOI: 10.5061/dryad.n0p44hn/3
title: Population assignments

description: File containing (1) ID codes, (2) species assignments, (3) population assignments, (4) latitude, and (5) longitude used in DAPC analyses and ecological niche modeling. Species assignment codes: Q = D. quadramaculatus, M = D. marmoratus, C = D. carolinensis. Population assignment codes: P = Pisgah, N = Nantahala, C = D. carolinensis.
DOI: 10.5061/dryad.q0f84nh/1
title: Breathitt Formation Supplementary Tables

description: Includes the fossil assemblage localities, species abundance information, individual size measurements, and average size and metabolic estimates for bivalves and brachiopods
DOI: 10.5061/dryad.q0f84nh/2
title: Supplementary File 1 -- Bivalves Phanerozoic refs

description: PBDB Data used for bivalves in the fig. 1 diversity curve
DOI: 10.5061/dryad.q0f84nh/3
title: Supplementary file 2 -- Brachs Phanerozoic refs

description: PBDB Data used for brachiopods in the fig. 1 diversity curve.
DOI: 10.5061/dryad.q0f84nh/4
title: Global analysis supplement part 1

description: PBDB Data (Ordovician - Permian) used for global analysis in fig. 9.
DOI: 10.5061/dryad.q0f84nh/5
title: Global analysis supplement part 2

description: PBDB Data (Triassic-Jurassic) used for global analysis in fig. 9.
DOI: 10.5061/dryad.qk361v8/1
title: Data file for Leung and Koprivnikar (2018) lizard helminth communities

description: Data file for Leung and Koprivnikar (2018) "Your infections are what you eat: how host ecology shapes the helminth parasite communities of lizards"
DOI: 10.5061/dryad.rm2n805/1
title: data formatted for analysis_Roberts et al. 2019 EcoApps

description: Bird survey detections and covariates file. Each row in this spreadsheet is a detection of a single species at a particular distance (in some cases may be more than one individual). Fields in this file include: PointYrID (a unique identifier for each point visited in a given year); Point (unique identifier for each field location); Transect (unique identifier for groups of points arranged in a 5-point transect); Year (calendar year in which the detections were recorded); Site (unique identifier for a pair of two 5-point transects in close proximity); Rep2 (visit identifier in sequential order across all years of surveys); Rep1 (visit identifier for sequential visit within the same calendar year, 1-2-3 are only possible values); Date (calendar date of the visit); DOY (numerical identifier of day of year on which the visit took place, possible values = 1-365); TOD (numerical format of time of day); Count (number of individuals detected); Spp (species identified, conforming to 4-letter AOU codes); Detection Cue (song=S, visual=V, call=C, drumming=D, hum=H, juvenile=J); Distance (distance in meters at first detection); Temp (temperature in degrees celsius); Wind (Beaufort scale estimated wind measurment).
DOI: 10.5061/dryad.rm2n805/2
title: Site covs.Roberts et al. 2019 EcoApps

description: Site covariates file. Fields include: PointYrID	(unique identifier for each point visited in each year); Forested (visual estimate from Google Earth imagery of the forest condition); ConDieOffGIS (visual estimate from GoogleEarth imagery and field survey estimates of the percent of standing trees within 100m of the bird survey plot center that have succumbed to beetle mortality); ConDieOfffield (visual estimate by field survey crew members of the percent of standing trees within 100m of the bird survey plot center that have succumbed to beetle mortality); CWHR1 (California Wildlife Habitat Relationship forest type classification); Point (unique point identifier); Year (calendar year in which the visit occurred); MaxOfVisit (number of visits in a single calendar year in which bird survey data were gathered); latitude (geographic coordinate WGS84/NAD83); longitude (geographic coordinate WGS84/NAD83); elevation (elevation in meters sampled from DEM); elevres (elevation residual from a regression of elevation vs. latitude for entire Bioregional Monitoring project sample); aspect (degrees aspect, 0-360); slope (% of vertical); SRI (Solar Radiation Index); southness (proportion of completely south-facing aspect [180 degrees]); ShrubCov (shrub cover, field estimated % cover); TreeCov (tree cover, field estimated % cover); BA (basal area, square feet per acre); g30SNAGS (count of snags greater than 30cm in diameter), totSNAGS (count of snags greater than 10cm in diameter); MaxDBH (diameter in inches of largest trees within 50m); PineProp (proportion of total tree cover that is either Sugar Pine, Ponderosa Pine, or Jeffrey Pine); NDWI (normalized difference wetness index); dNDWI (difference in normalized difference wetness index from baseline value in 2009); cwd (climatic water deficit in mm H2O); dCWD (difference in CWD from baseline value in 2009); tmn (average daily minimum temperature in june); tmx (average daily maximum temperature in June); dtmn (difference in average daily minimum temperature in June from baseline value in 2009); dtmx (difference in average daily maximum temperature in June from baseline value in 2009).
DOI: 10.5061/dryad.rm2n805/3
title: species list

description: List of species included in this analysis. Fields include Spp (4-letter AOU code); model (best fitting distsamp model detection function)
DOI: 10.5061/dryad.rm2n805/4
title: Site covs CNRM85b

description: Covariates file for future predictions of species abundances based on the CNRM climate projections. All covariates as described in "Site covs.Roberts et al. 2019 EcoApps.csv" file except that temperature (TMN, TMX, dDMN, dTMX) data are sampled from future predictions according to the CNRM85 scenario.
DOI: 10.5061/dryad.vk13np4/4
title: Metabolic_Warming

description: Mean collective metabolic warming for each bivouac, complete with data used to estimate metabolic warming (temperature when ants were present and when absent) and both simultaneously collected ambient temperature, as well as grand mean of ambient temperature across both times when the bivouac was present and when it was absent (regardless of time of day). All temperatures were recorded using i-button data loggers.
DOI: 10.5061/dryad.vk13np4/5
title: Timematched_Metabolic_Warming

description: Mean collective metabolic warming for each bivouac, complete with data used to estimate metabolic warming (temperature when ants were present and when absent -using only time-of-day matched absent times) and both simultaneously collected ambient temperature, as well as ambient temperature. All temperatures were recorded using i-button data loggers.