cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1vm20t6/2
title: Results_ltdu

description: Model output for Long-tailed Duck
DOI: 10.5061/dryad.1vm20t6/3
title: Results_scot

description: Model results for scoter species
DOI: 10.5061/dryad.20ch6p5/1
title: valan2018_SUPPLEMENT.tar

description: This directory contains: 
	* metadata to obtain images from the three novel datasets we designed for our study
	* notebooks with thorough evaluation of off-the-shelf approach for image classification based on a feature extraction with a single feed forward pass trough pretrained VGG16 
	* script to run on your own dataset with what we found to be optimal settings. 

You can also access it here https://github.com/valanm/off-the-shelf-insect-identification
DOI: 10.5061/dryad.20ch6p5/3
title: Supplementary_Figure1

description: Impact of concatenating globally max pooled (MAX) and globally average pooled (AVG) features on identification accuracy for datasets D1, D2, D3 and D4. We used input images of size 416x416 and features are extracted after 4th convolutional block (c4). Concatenation of MAX and AVG features resulted in accuracy somewhere between the global average pooling (performed the best in all cases) and global max pooling (performed the worst in all cases).
DOI: 10.5061/dryad.20ch6p5/4
title: valan2018_latex
DOI: 10.5061/dryad.48cn500/1
title: DeLong_and_Gibert_2019_species_area_data

description: Excel spreadsheet file in four tabs. 1) Species names, cell volumes, and cell volume and biomass ranks of species. 2) Carbon, nitrogen, oxygen consumption, and biovolume of microcosm communities on the last day of the experiment. 3) Counts of each species on the last day by dish size and replicate, also converted into biomass. 4) Presence absence of each species in each dish by day and treatment.
DOI: 10.5061/dryad.48cn500/2
title: DeLong_Gibert_2019

description: This zipped folder contains two Matlab scripts that analyze our data and produce all figures in the manuscript.
DOI: 10.5061/dryad.6mh0sv3/1
title: Puljung_data_sets
DOI: 10.5061/dryad.6ph57.2
title: Data from: Herbarium specimens reveal a historical shift in phylogeographic structure of common ragweed during native range disturbance
DOI: 10.5061/dryad.7hs87bh/4
title: ARC data

description: Outcomes in japanese patients with infections and augmented renal clearance
DOI: 10.5061/dryad.8kn7ng0/1
title: Code and Data

description: Code and Data
DOI: 10.5061/dryad.9hb966d/1
title: 212samples_1386markers_genepop

description: Text file (genepop input format) containing the genotypes used for population genomics analysis. The file contains the genotypes of 1386 SNPs typed in 212 individuals, from 10 population samples. The population order is TGN (Tegnùe, Chioggia), TR (Tremiti islands), OT (Otranto), TP (Trapani), CSP (Capo Spartivento), TAV (Tavolara), GNS (Giannutri South), GNN (Giannutri North), PTF (Portofino) and GA (Gallinara).
DOI: 10.5061/dryad.b0j2td6/1
title: Richter2019PLoSG data folder

description: Original source of information for ChIP-qPCR, RT-qPCR and MNase-qPCR analysis was collected from a Roche Light Cycler 480 Instrument (Roche) and BioRad CFX384 Touch Real-Time Detection System (BioRad). Data was analysed with Microsoft Excel Version 15 (Microsoft). Immunoblots were performed and analysed with LAS-4000 Mini Image Analyzer (FujiFilm). Confocal images were taken with confocal laser scanning microscopy (Zeiss LSM780). Images were processed with and figure construction was performed with Adobe Photoshop CS6 (Adobe). Flowering time data was obtained from plants that were grown on soil at 22°C under long-day or short-day conditions. Data was analysed with Microsoft Excel Version version 15.27 (Microsoft). Mechanistic sketch of modus operandi for the regulation of TFS1 was generated with Microsoft PowerPoint version 15.27 (Microsoft).
DOI: 10.5061/dryad.bh0pj76/1
title: Data_Herders indicators for formal monitoring_Dryad

description: Vegetation data was collected in the field during the summers in 2011 and 2012. Herders interview was conducted in the field during summer 2013.
DOI: 10.5061/dryad.c65b4j5/2
title: Raw data and reconstructed models

description: Qishou-Mao&Meng.zip contains the raw data in TIF format of the CT-scanned teeth used in the paper. In each folder containing the TIF files, there is a file with the ending “raw”; the number in the folder name represents X-Y-Z-resolution. The data should be openable using VG-Studio. There is also a folder containing the .stl files, in which the reconstructed model can be played using Preview or other programs. Some of the model images have been flipped from the original specimens. Please see the README.docx for further information.
DOI: 10.5061/dryad.d81073k/1
title: Dryad_S1

description: Metadata (Location	Year	Host) and Illumina sequencing statistics for the 107 Phytophthora ramorum isolates resequenced in this study
DOI: 10.5061/dryad.d81073k/2
title: Dryad_S2

description: Quality control of Illumina sequencing and SNP filtering of Phytophthora ramorum.
DOI: 10.5061/dryad.d81073k/3
title: Dryad_S3

description: Assembly statistics (size, size of longest scaffold, # of scaffolds and N50) and completeness (BUSCO coverage) for eight de novo assemblies generated for Phytophthora ramorum with Abyss
DOI: 10.5061/dryad.d81073k/4
title: Dryad_S4

description: Nucleotide and gene content of the de novo assemblies obtained for the four Phytophthora ramorum lineages
DOI: 10.5061/dryad.f3v185t/1
title: all961

description: The lake- and catchment-scale environment data used in the study for the variance partitioning analyses can be accessed here
DOI: 10.5061/dryad.hf03sm4/1
title: Wolong_Arlequin

description: The microsatellite data of 142 giant pandas from the Wolong National Nature Reserve, in Arlequin format
DOI: 10.5061/dryad.k3583p1/5
title: Temporal variation in size distribution

description: Data on the size distribution (mm total length) of captured pike juveniles with (predation site) and without (no predation site) sticklebacks present. Data sampled in one popualtion (pop O) across 5 years (2007-2009, 2013-2014)
DOI: 10.5061/dryad.kk6832p/1
title: Studies included in the meta-analysis, calculation of effect sizes and relevant information.

description: The dataset contains information on the 301 pairwise comparisons from 47 publications included in the meta-analysis. The calculations of Hedges' g effect sizes are shown. Relevant information including the study design, macrophyte growth form, latitude, longitude, elevation,  climatic zone, experiment duration, lake area, lake depth and macrophyte coverage are recorded.
DOI: 10.5061/dryad.mg3n2c2/1
title: nkcell_Model1_reactions

description: Stochastic Simulation Compiler (SSC) code for Model 1
DOI: 10.5061/dryad.mg3n2c2/2
title: nkcell_Model2_reactions

description: Stochastic Simulation Compiler (SSC) code for Model 2
DOI: 10.5061/dryad.nm1189t.1
title: Data from: Mapping a systematic ribozyme fitness landscape reveals a frustrated evolutionary network for self-aminoacylating RNA
DOI: 10.5061/dryad.nm1189t.1/1.1
title: Correlation of Fitness Effects - script

description: Python script to calculate the correlation of fitness effects in a given ribozyme family.
DOI: 10.5061/dryad.nm1189t.1/2.1
title: Correlation of Fitness Effects - source file

description: Excel source file used as input for the script ActivityCorrelationGamma.py.
DOI: 10.5061/dryad.nm1189t.2/10.2
title: Count reads files for post-kseq populations

description: Text files pertaining to sequences present in post-kseq populations, from the kseq assay performed at the end of selection. A, B, C etc. pertain to replicates; 1-indicates 250uM BYO, 2-indicates 50uM, 3-indicates 10uM, 4-indicates 2uM. Each file contains round information in its header, followed by sequences and the number of times they appeared in that round.
DOI: 10.5061/dryad.nm1189t.2/5.2
title: Pathways between Peak Sequences - script

description: Python script to searche for the shortest pathway between two sequences along a fitness landscape.
DOI: 10.5061/dryad.nm1189t.2/6.2
title: Fastq files for original selection

description: Fastq files pertaining to sequences present in rounds of selection, from the original BYO aminoacylase ribozyme selection. Conserved primer regions have been removed; sequences correspond only to the randomized internal region of the library.
DOI: 10.5061/dryad.nm1189t.2/7.2
title: Count reads files for original selection

description: Text files pertaining to sequences present in rounds of selection, from the original BYO aminoacylase ribozyme selection. Each file contains round information in its header, followed by sequences and the number of times they appeared in that round.
DOI: 10.5061/dryad.nm1189t.2/8.2
title: Fastq files for second selection

description: Fastq files pertaining to sequences present in rounds of selection, from the second BYO aminoacylase ribozyme selection.
DOI: 10.5061/dryad.nm1189t.2/9.2
title: Count reads files for second selection

description: Text files pertaining to sequences present in rounds of selection, from the second BYO aminoacylase ribozyme selection. Each file contains round information in its header, followed by sequences and the number of times they appeared in that round.
DOI: 10.5061/dryad.pc3f9d8/1
title: Plot data from: Wildfires and climate change push low-elevation forests across a critical climate threshold for tree regeneration

description: This file contains annual recruitment rates for post-fire sites in Montana, Idaho, Colorado, New Mexico, Arizona, and California. The rates were determined by destructively sampling trees to age precisely at the root-shoot boundary (see manuscript for more details). Also included in this file is relevant site information.
DOI: 10.5061/dryad.qd65020/1
title: ChikV Scoping Review raw data_2326

description: Raw data file from a scoping review of published literature on chikungunya virus
DOI: 10.5061/dryad.r236r31/1
title: Contrasting heterozygosity-fitness correlations across life in a long-lived seabird
DOI: 10.5061/dryad.rq0pj53/1
title: canopy_ecuador_part1.tar

description: Individual .fastq files for canopy Ecuador samples, part 1.
DOI: 10.5061/dryad.rq0pj53/2
title: canopy_ecuador_part2.tar

description: Individual .fastq files for canopy Ecuador samples, part 2.
DOI: 10.5061/dryad.tc3415t/1
title: Schwermann_He_et_al_2018_Systematis_and_macroevolution_of_extant_and_fossil_scalopine_moles_suppl

description: S1: Dental Formular f Yunoscaptor scalprum and Scapanulus oweni; S2: Matrix and characters for phylogenetic Analysis; S3: List of species used in this study, and their sample sizes; S4: Published North American Mioscalops-findings; S5: Notes on Mioscalops-findings from the Hemphillian
DOI: 10.5061/dryad.v5sh63t/1
title: dph01_earlycopepodite_DB-1259

description: TIFF sequence of interaction DB-1259 (1 day post-hatch fish targeting early copepodite).
DOI: 10.5061/dryad.v5sh63t/2
title: dph03_earlycopepodite_NA-507

description: TIFF sequence of interaction NA-507 (3 days post-hatch fish targeting early copepodite).
DOI: 10.5061/dryad.v5sh63t/3
title: dph03_earlycopepodite_NA-3547

description: TIFF sequence of interaction NA-3547 (3 days post-hatch fish targeting early copepodite).
DOI: 10.5061/dryad.v5sh63t/4
title: dph03_latecopepodite_MG-597

description: TIFF sequence of interaction MG-597 (3 days post-hatch fish targeting a late copepodite).
DOI: 10.5061/dryad.v5sh63t/5
title: dph03_latecopepodite_MG-1059

description: TIFF sequence of interaction MG-1059 (3 days post-hatch fish targeting a late copepodite).
DOI: 10.5061/dryad.v5sh63t/6
title: dph03_latecopepodite_NC-274

description: TIFF sequence of interaction NC-274 (3 days post-hatch fish targeting a late copepodite).
DOI: 10.5061/dryad.vd561/1
title: All Data

description: All data associated with manuscript. Read the enclosed DataOverview.txt file for a description of individual files. CodeOverview.txt (also enclosed) describes the code used to generate and analyze the data that are found in the other data files.
DOI: 10.5061/dryad.vd561/2
title: Figure Data and Code

description: MATLAB code to generate Figures 2-5 and the associated compiled data files. Compiled data extracted from raw data found in 'All Data' data file. Figure 1 simulation and figure generation file is found in the 'KpEstimationToolkit' data file.
DOI: 10.5061/dryad.vd561/3
title: Kp Estimation Toolkit

description: Code to run Kp estimator and run simulations for manuscript. See other data files for more information.
DOI: 10.5061/dryad.vd561/4
title: Steady-state analysis toolkit

description: Code to run the steady-state trial identification and analysis.
DOI: 10.5061/dryad.vd561/5
title: Manuscript Code & Data

description: De-identified human subject data, Bayesian learner code and code to generate all figures. Code used to generate the significant difference markings on plots: Rob Campbell (2018). raacampbell/sigstar (https://www.github.com/raacampbell/sigstar), GitHub. Retrieved November 13, 2018. Code used to generate the shaded error bars on plots: Rob Campbell (2018). raacampbell/shadedErrorBar (https://github.com/raacampbell/shadedErrorBar), GitHub. Retrieved November 20, 2018.
DOI: 10.17632/7c88jsnm69.1
title: Data for: SUBDUCTION CONTROL ON THE CURIE ISOTHERM AROUND THE PACIFIC-NORTH AMERICA PLATE BOUNDARY IN NORTHWESTERN MEXICO (GULF OF CALIFORNIA). PRELIMINARY RESULTS.

description: This repository contains the raw data necesay to reproduce our results. In particular, data necesary to reproduce the results shown in Figures 5a,5b, %fc, 6a, 6b, 6c, and 7a, and 7b are included, as well as instructions how to reproduce our results.
DOI: 10.17632/9nd9d3v3ff.1
title: Data for: Preparation of High Quality Ta-LLZO/MgO Composite Li-ion Solid Electrolyte: Sintering, Microstructure, Performance and the Role of MgO

description: Six Li-LLZO/MgO-Li batteries are assembled. The EIS and rate cycling measurements are applied. The .nox files can be opened by Nova.exe provided by Metrohm Autolab. The .nda files can be opened by Neware.exe provided by Neware. The .opj file can be opened by origin lab 2016.
DOI: 10.17632/gj92s2nph9.1
title: Data for: Discontinuous fatigue of salt rock with low-stress intervals

description: Basic data for the stress-strain of salt rock in discontinous cyclic loading tests
DOI: 10.5061/dryad.1c9g5mm.1/10.1
title: min10.phy

description: Concatenated phylip alignment for the dataset containing minimum 10 samples per locus. See "params_Darter_m10.txt" for more information on assembly parameters.
DOI: 10.5061/dryad.1c9g5mm.1/22.1
title: Figure A2

description: Figure A2. ASTRAL species tree. Nodes have local posterior probability = 1.0 unless otherwise noted. Branch lengths are in coalescent units. ASTRAL cannot estimate terminal branch lenghs, so all terminal branches arbitrarily = 1.0 coalescent units. Black nodes represent topological conflicts between the ASTRAL species tree and the concatenated RAxML tree.
DOI: 10.5061/dryad.1c9g5mm.1/24.1
title: Figure A4

description: Figure A4. Primary concordance tree. Species sampled for each clade are indicated below the clade names. Nodes are labeled with concordance factors, 95% CI in parentheses.
DOI: 10.5061/dryad.1c9g5mm.1/25.1
title: Figure A5

description: Fig. A5. Time-calibrated maximum clade credibility species tree inferred using SNAPP with all unlinked SNPs shared by the eleven sampled taxa. Grey bars on the nodes indicate 95% highest posterior density for the node heights. Bayesian posterior support is 1.0 unless otherwise labeled. Arrows indicate the potential window for introgression between the stem lineage of Allohistium and the stem lineage of Simoperca.
DOI: 10.5061/dryad.1c9g5mm.1/26.1
title: Table A4

description: Table A4. Results of the first set of D-statistic tests (Fig. 4).
DOI: 10.5061/dryad.1c9g5mm.1/32.1
title: Table A8

description: Table A8. Results of the second set of D-statistic tests (Fig. 5).
DOI: 10.5061/dryad.1c9g5mm.1/7.1
title: m20.loci

description: Pyrad .loci file for the dataset containing minimum 20 samples per locus. See "params_Darter_m20.txt" for more information on assembly parameters.
DOI: 10.5061/dryad.1c9g5mm.1/8.1
title: min30.loci

description: Pyrad .loci file for the dataset containing minimum 30 samples per locus. See "params_Darter_m30.txt" for more information on assembly parameters.
DOI: 10.5061/dryad.1qd621b/1
title: DataSet_Bizkaia

description: In this document we show the original data set of the Mental Health System of Bizkaia (Spain). Variables are classified in inputs and outputs. Mental Health Services has been standardized by using DESDE-LTC codification tool. Variables are organized in 4 groups: 1) Availability of Mental Health Services in each DMU. 2) Placement capacity according to the Maint Type of Care provided (Residential, Day and Outpatient care), 3) Workforce capacity: professionals that provide the Main Type of Care in the DMU. 4) Utilization indicators: discharges, readmissions and length of stay for residential acute hospital care, and incidence, prevalence and frequentation for outpatient care.
DOI: 10.5061/dryad.3q177d2/1
title: Behavioral trials

description: Locations (height above ground) of grasshoppers and spiders inside terrariums recorded over the period of one day
DOI: 10.5061/dryad.3q177d2/2
title: Leaf CN data

description: Carbon and nitrogen content of goldenrod and grass leaves from five sites in New England
DOI: 10.5061/dryad.3q177d2/3
title: Plant biomass

description: Plant biomass (goldenrod and grass) from control and experimental mesocosms at the termination of the experiment
DOI: 10.5061/dryad.3q177d2/4
title: SMR data

description: Standard metabolic rate data for spiders and grasshoppers between 15 and 40 degrees Celsius
DOI: 10.5061/dryad.3q177d2/5
title: Survivorship

description: Rates of survival for spiders and grasshoppers from mesocosms spread across five sites in New England
DOI: 10.5061/dryad.6ph57.2/1.2
title: FASTA alignment of concatenated haplotype sequences

description: FASTA file containing a multiple sequence alignment of all unique haplotype sequences (post-concatenation) used in analyses in this study. Sequences are labeled "XXYYZZ", where XX is the psbA-trnH haplotype sequence ID as defined on GENBANK, YY is the atpF-atpH haplotype sequence ID as defined on GENBANK, and ZZ is the psbK-psbI haplotype sequence ID as defined on GENBANK. For each accession, the individual haplotype sequences are concatenated in the same order as the labels.
DOI: 10.5061/dryad.6ph57.2/10.2
title: GENELAND genotype input file for historical samples
DOI: 10.5061/dryad.6ph57.2/2.2
title: Newick tree file relating four temporal clusters defined by GENELAND

description: Bootstrap support values are indicated as percentage of 100 replicates. Four clusters (branch tips) are included: HISTORICAL WEST, HISTORICAL NORTHEAST, MODERN WEST, and MODERN NORTHEAST.
DOI: 10.5061/dryad.6ph57.2/3.2
title: TESS input file for spatial-genetic analysis of historical samples
DOI: 10.5061/dryad.6ph57.2/4.2
title: TESS input file for spatial-genetic analysis of modern samples
DOI: 10.5061/dryad.6ph57.2/5.2
title: GENEPOP input file with populations defined as historical and modern clusters inferred by GENELAND
DOI: 10.5061/dryad.6ph57.2/6.2
title: GENEPOP input file with modern populations data
DOI: 10.5061/dryad.6ph57.2/7.2
title: GENELAND genotype input file for modern samples
DOI: 10.5061/dryad.6ph57.2/8.2
title: GENELAND coordinate input file for modern samples
DOI: 10.5061/dryad.km3n6t4/1
title: Data of the Figures in the Main Text

description: Data of the figures in the main text
DOI: 10.5061/dryad.km3n6t4/2
title: Readme-Electronic supplementary material

description: Readme--Electronic supplementary material
DOI: 10.5061/dryad.m171n70/1
title: Data for DRYAD

description: Invertebrate samples from Mojave and Great Basin research sites
DOI: 10.5061/dryad.m48h8ht/1
title: Guenser et al 2018_Supplementary material_R code

description: These are the code lines used in R software to perform the statistical analyses (STATIS and correlation tests).
DOI: 10.5061/dryad.m48h8ht/3
title: Supplementary_Tables_Variables_for_statistical_analyses

description: There are six tables containing variables (aligned coordinated after generalised Procruste superposition, or harmonics obtained from elliptical fourier analysis) we used for statistical analyses. Table 1 to 3 contain the variables from conodont elements we scanned. Table 4 to 6 contain the latter variables, as well as variables from the elements illustrated in the literature.
DOI: 10.5061/dryad.m80f888/1
title: Akinyi et al_helminth costs and drivers

description: The file contains data on samples collected from female baboons to test the costs and drivers of helminth infection.
DOI: 10.5061/dryad.mg3n2c2/3
title: nk_cell_Model1_parameters

description: SSC input file for the parameter values used for Model 1
DOI: 10.5061/dryad.mg3n2c2/4
title: nk_cell_Model2_parameters

description: SSC input file for parameter values for Model 2
DOI: 10.5061/dryad.ng3r749.2
title: Data from: Creating a multi-track classical music performance dataset for multi-modal music analysis: challenges, insights, and applications
DOI: 10.5061/dryad.nm1189t.1/10.1
title: Count reads files for post-kseq populations

description: Text files pertaining to sequences present in post-kseq populations, from the kseq assay performed at the end of selection. A, B, C etc. pertain to replicates; 1-indicates 250uM BYO, 2-indicates 50uM, 3-indicates 10uM, 4-indicates 2uM. Each file contains round information in its header, followed by sequences and the number of times they appeared in that round.
DOI: 10.5061/dryad.nm1189t.1/3.1
title: k-seq Analysis - script

description: Python script to calculate catalytic kinetics for a population of sequences, using the k-Seq methodology.
DOI: 10.5061/dryad.nm1189t.1/4.1
title: k-seq Analysis - example input files

description: Input files for k-seq Analysis: kseq_rounds is example-rounds.txt, normalization_list is example-normalization.txt, substrate_concs is example-subst-concs.txt, rounds_to_average is example-rnds-to-avg.txt and rounds_to_error is example-rnds-to-err.txt.
DOI: 10.5061/dryad.nm1189t.1/5.1
title: Pathways between Peak Sequences - script

description: Python script to searche for the shortest pathway between two sequences along a fitness landscape.
DOI: 10.5061/dryad.nm1189t.1/6.1
title: Fastq files for original selection

description: Fastq files pertaining to sequences present in rounds of selection, from the original BYO aminoacylase ribozyme selection. Conserved primer regions have been removed; sequences correspond only to the randomized internal region of the library.
DOI: 10.5061/dryad.nm1189t.1/7.1
title: Count reads files for original selection

description: Text files pertaining to sequences present in rounds of selection, from the original BYO aminoacylase ribozyme selection. Each file contains round information in its header, followed by sequences and the number of times they appeared in that round.
DOI: 10.5061/dryad.nm1189t.1/8.1
title: Fastq files for second selection

description: Fastq files pertaining to sequences present in rounds of selection, from the second BYO aminoacylase ribozyme selection.
DOI: 10.5061/dryad.nm1189t.1/9.1
title: Count reads files for second selection

description: Text files pertaining to sequences present in rounds of selection, from the second BYO aminoacylase ribozyme selection. Each file contains round information in its header, followed by sequences and the number of times they appeared in that round.
DOI: 10.5061/dryad.p5k0156/1
title: Auxiliary file 1 - Dataset 1 HeLa_TAPBPR-WT_W632

description: Peptide eluted from MHC I molecules in HeLaM cells over-expressing TAPBPR-WT
DOI: 10.5061/dryad.p5k0156/10
title: Auxiliary file 9 - dataset 3 HeLa_TAPBPR-WT_W632

description: Peptide eluted from MHC I molecules in HeLaM cells over-expressing TAPBPR-WT
DOI: 10.5061/dryad.p5k0156/2
title: Auxiliary file 2 - Dataset 1 HeLa_TAPBPR-GSloop _W632

description: Peptides eluted from MHC class I molecules from HeLaM cells over-expressing TAPBPR-GSloop.