cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.hj1p1/7
title: Figure S5

description: FIG. S5. Ancestral state reconstruction for the character: “Leaf shape”, on the phylogenetic hypothesis based on ITS. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/9
title: Figure S7

description: FIG. S7. Ancestral state reconstruction for the character: “Stipule shape”, on the phylogenetic hypothesis based on ITS. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.nq67q/1
title: GWAS of CHCs and colour pattern
DOI: 10.5061/dryad.nq67q/2
title: Whole-genome analyses of published T. cristinae genomes
DOI: 10.5061/dryad.nt91j/1
title: Table S_1

description: Table S_1. Literature used to rank the abundance of trophic resources among ecosystems. The last section (biotope typologies) has been used principally to detect natural or anthropogenic pressures influencing the basic patterns of food availability. Reference numbers indicated in Tables 1 and 6 refer to the papers listed here.
DOI: 10.5061/dryad.p0mf1/1
title: Simulation script

description: R script used to simulate the invasion data used in the study.
DOI: 10.5061/dryad.p0mf1/2
title: Experimental data

description: Experimental data of the invasions of T.chilonis performed for this study.
DOI: 10.5061/dryad.pk50t/10
title: G6PC3_outgroup
DOI: 10.5061/dryad.pk50t/11
title: Mammalian G6PC alignment
DOI: 10.5061/dryad.pk50t/12
title: G6PC_chimpanzee_gammaMap
DOI: 10.5061/dryad.pk50t/13
title: G6PC_gorilla_gammaMap
DOI: 10.5061/dryad.pk50t/14
title: G6PC_human_gammaMap
DOI: 10.5061/dryad.pk50t/15
title: G6PC_outgroup
DOI: 10.5061/dryad.pk50t/16
title: Metazoans align
DOI: 10.5061/dryad.pk50t/17
title: G6PC, G6PC2 and G6PC3 phylogenetic trees
DOI: 10.17632/35fw8pb6s9.1
title: A clustering based forecasting algorithm for multivariable fuzzy time series using linear combinations of independent variables

description: Dear Researcher, Thank you for using this code and datasets. I explain how CFTS code related to my paper "A clustering based forecasting algorithm for multivariable fuzzy time series using linear combinations of independent variables" published in Applied Soft Computing works. All datasets mentioned in the paper accompanied with CFTS code are included. If there is any question feel free to contact me at: bas_salaraskari@yahoo.com s_askari@aut.ac.ir Regards, S. Askari Guidelines for CFTS algorithm: 1. Open the file CFTS Code using MATLAB. 2. Enter or paste name of the dataset you wish to simulate in line 5 after "load". It loads the dataset in the workplace. 3. Lines 6 and 7: "r" is number of independent variables and "N" is number of data vectors used for training. 4. Line 9: "C" is number of clusters. You can use the optimal number of clusters given in Table 6 of paper or your own preferred value. 5. If line 28 is "comment", covariance norm (Mahalanobis distance) is use and if it is "uncomment", identity norm (Euclidean distance) is used. 6. Please press Ctrl Enter to run the code. 7. For your own dataset, please arrange the data as the datasets described in MS Word file "Read Me".
DOI: 10.17632/7jdnbjfj4x.1
title: Equinoterapia o Rehabilitación Ecuestre, una alternativa que ayuda a vivir, a pesar de las limitaciones físicas

description: La rehabilitación física es, sin dudas, la máxima aspiración de aquellas personas que han sufrido una enfermedad cerebrovascular de la cual han podido escapar con vida. Sin embargo, las secuelas y serios daños que ocasionan, constituyen un duro golpe, por cuanto limitan al ser humano en el desempeño de sus principales actividades cotidianas, además de ser afecciones degenerativas que con los años van empeorando. Conversar, reír, comunicarse, caminar, en términos sencillos, realizar todo lo que implica el diario quehacer del ser humano, son, en la práctica, acciones de vital importancia para el hombre, y este canal casi siempre se rompe cuando ocurre cualquier episodio neurológico, de gran incidencia en los adultos de la Tercera Edad. Para dar a conocer e intercambiar experiencias acerca de sus estudios e investigaciones, neurólogos, doctores de diferentes especialidades médicas, médicos fisiatras, licenciados en Educación Especial, psicólogos y fisioterapeutas de Brasil, Uruguay, Chile, Argentina, España, Estados Unidos de Norteamérica, Serbia y otras regiones del mundo, se dieron cita con sus homólogos cubanos, en el Palacio de las Convenciones, del 10 al 14 de marzo del presente año 2008.
DOI: 10.17632/b3xkmxrz88.1
title: Generalized entropy based possibilistic fuzzy C-means

description: Dear Researcher, Thank you for using this code and datasets. I explain how GEPFCM code related to my paper "Generalized entropy based possibilistic fuzzy C-Means for clustering noisy data and its convergence proof" published in Neurocomputing, works. The main datasets mentioned in the paper together with GEPFCM code are included. If there is any question, feel free to contact me at: bas_salaraskari@yahoo.com s_askari@aut.ac.ir Regards, S. Askari Guidelines for GEPFCM algorithm: 1. Open the file GEPFCM Code using MATLAB. This is relaxed form of the algorithm to handle noisy data. 2. Enter or paste name of the dataset you wish to cluster in line 15 after "load". It loads the dataset in the workplace. 3. For details of the parameters cFCM, cPCM, c1E, c2E, eta, and m, please read the paper. 4. Lines 17 and 18: "N" is number of data vectors and "D" is number of independent variables. 5. Line 26: "C" is number of clusters. To input your own desired value for number of clusters, "uncomment" this line and then enter the value. Since the datasets provided here, include "C", this line is "comment". 6. Line 28: "ruopt" is optimal value of ρ discussed in equation 13 of the paper. To enter your own value of ρ, "uncomment" this line. Since the datasets provided here, include "ruopt ", this line is "comment". 7. If line 50 is "comment", covariance norm (Mahalanobis distance) is use and if it is "uncomment", identity norm (Euclidean distance) is used. 8. When you run the algorithm, first FCM is applied to the data. Cluster centers calculated by FCM initialize PFCM. Then PFCM is applied to the data and cluster centers computed by PFCM initialize GEPFCM. Finally, GEPFCM is applied to the data. 9. For two-dimensional plot, "uncomment" lines 419-421 and "comment" lines 423-425. For three-dimensional plot, "comment" lines 419-421 and "uncomment" lines 423-425. 10. To run the algorithm, press Ctrl Enter on your keyboard. 11. For your own dataset, please arrange the data as the datasets described in the MS word file "Read Me".
DOI: 10.5061/dryad.0dp50/2
title: Biomass Flowering Root Depth

description: Species biomass, rooting depth and flowering time
DOI: 10.5061/dryad.0dp50/3
title: Water Use Parameters

description: Species water use parameters
DOI: 10.5061/dryad.1k8q4/1
title: Data from Gupta et al. JEB

description: Excel file containing data used to generate all figures in  Costs and benefits of sub-lethal Drosophila C Virus infection. Includes survival, fecundity, locomotor activity, viral titres and fecal excretion of male and female flies exposed to low, sub-lethal concentrations of Drosophila C Virus via either the oral or systemic route of infection.
DOI: 10.5061/dryad.1q9g7/1
title: Data for microsatellites, spectrophotometry and melanins dosage

description: This file contains 1) microsatellites data in GENPOP format, 2) morphometric data for birds included in the pedigree analysis, 3) Spectrophotometry measurements and 4) Results from the dosage of melanins for 12 individuals. Localities coordinates are also provided.
DOI: 10.5061/dryad.1q9g7/2
title: Unfiltered VCF file for 42 individuals

description: SNPs calls for individual GBS data from the same three localities as in Pooled RAD-seq. Colors and localities for each individuals are provided in a separate excel file.
DOI: 10.5061/dryad.1q9g7/3
title: Information about individuals included in the GBS VCF file

description: Morph and localities for each individual included in the GBS study.
DOI: 10.5061/dryad.2hf15/1
title: Experiment One: Are the type of alarm signals produced stimulus-specific?

description: Presentation of a stimulus similar to a gliding raptor established a direct association between aerial stimuli and aerial alarm call production by noisy miners.
DOI: 10.5061/dryad.2hf15/2
title: Experiment Two: Does receiver flight response alter between alarm call types?

description: In the second field test, noisy miners demonstrated the ability to alter their behavior according to changes in the alarm call type broadcast.
DOI: 10.5061/dryad.2hf15/3
title: Experiment Three: Does receiver observational response differ between alarm call types?

description: Birds were then tested in standardized conditions and demonstrated the ability to  alter their behavior in the 20 seconds post-playback as expected under a referential signaling communication system.
DOI: 10.5061/dryad.3t423/1
title: beta-tubulin alignmnent of sect. Restricti
DOI: 10.5061/dryad.3t423/2
title: calmodulin alignmnent of sect. Restricti
DOI: 10.5061/dryad.3t423/3
title: rDNA ID region alignmnent of sect. Restricti
DOI: 10.5061/dryad.4tj56/1
title: Emydoideadata_MEC-16-0834

description: Microsatellite data for Blanding's turtles.
DOI: 10.5061/dryad.4tj56/2
title: Chelydradata_MEC-16-0834

description: Microsatellite data for snapping turtles.
DOI: 10.5061/dryad.4tj56/3
title: Chrysemysdata_MEC-16-0834

description: Microsatellite data for painted turtles.
DOI: 10.5061/dryad.860kn/1
title: Mental Health Outcomes Variables for mHealth trial

description: This file contains the means calculated for the ibobbly (intervention) group and the waitlist group for four measures. The measures are suicidal ideation (DSI-SS), the primary outcome, depression (PHQ9), Psychological Distress (K10), and Impulsivity (BIS-II). The analyses and graphs are provided for each measure also.
DOI: 10.5061/dryad.860kn/2
title: ibobblyRawDataforDryad

description: This file contains the raw data collected in interviews on the four measures, DSI-SS, PHQ9, K10, and the BIS-II. There are three time points, baseline, 6 weeks (end of trial for intervention group), and 12 weeks (end of trial for waitlist group). It also includes unidentifiable details such as employment and brief health history.
DOI: 10.5061/dryad.86337/27
title: Figure_S4CD

description: Change in global efficiency and giant component size following simple node deletion, and node degrees, in the fear memory network.
DOI: 10.5061/dryad.86337/28
title: Figure_S5A

description: Percent freezing in mice infused with a control virus and administered VEH or CNO.
DOI: 10.5061/dryad.86337/29
title: Figure_S5BCDEF

description: Difference in freezing between CNO and VEH treated animals. Changes in the giant component size for the fear memory network following application of the disruption propagation model. Node degrees in the fear memory network. Changes in the global efficiency of the fear memory network following simple node deletion. Alpha critical values derived from the cascading failure model applied to the fear memory network. Volume of each region targeted in behavioral experiments.
DOI: 10.5061/dryad.86337/30
title: Figure_S6A

description: Difference in freezing between CNO and VEH treated animals. Change in the global efficiency following application of the disruption propagation model to the control network with the same density as the fear memory network.
DOI: 10.5061/dryad.86337/31
title: Figure_S6B

description: Difference in freezing between CNO and VEH treated animals. Change in the global efficiency following application of the disruption propagation model to the anatomical network with the same density as the fear memory network.
DOI: 10.5061/dryad.86337/32
title: Cascading_failure_model

description: R implementation of the cascading failure model
DOI: 10.5061/dryad.86337/33
title: Disruption_propagation_model

description: R implementation of the disruption propagation model
DOI: 10.5061/dryad.88r38/1
title: Dataset Item 1, 2, and 3

description: This study examined the midgut metabolic profiles of Anopheles gambiae mosquitoes following feeding with sugar, human blood, mouse blood, and Plasmodium falciparum-infected human blood.  GC/MS and LC/MS were used to determine the abundance of 512 metabolites. The dataset associated with this study includes 3 items, which are described as follows.  Dataset Item 1 (Table) contains information about biochemicals, pathway assignment, and abundance, using the original scale.  Dataset Item 2 (Table) contains information about biochemicals, pathway assignment, and abundance, using rescaled values.  Dataset Item 3 (Images) contains graphical views of biochemical abundance. Each box plot presents the abundance of one compound in all samples.
DOI: 10.5061/dryad.8q931/1
title: Citation location results

description: Details of the articles analyzed to determine the location of original data identifiers within the article. Only includes results for articles that were Open Access and full-text indexed in EPMC.
DOI: 10.5061/dryad.8q931/2
title: Citation location script

description: This Python script imports lists of Dryad metadata and uses it to search Europe PMC and to locate and classify data references appearing in the literature.
DOI: 10.5061/dryad.8v312/1
title: Rogalski_AmNat_2016_Daphnia_Toxicity_Trials

description: Acute toxicity responses (48 hour LC50s) to metal exposure for Daphnia ambigua clones hatched from lake sediment egg banks. Mortality responses were measured for 1-5 replicates per clone on one or more test dates.
DOI: 10.5061/dryad.c4b89/1
title: Immigration Characteristics/Death Rates
DOI: 10.5061/dryad.dc863/5
title: NeighborCommunities

description: NeighborCommunities is an ArcMap version 10.4.1 shapefile of line-features (SpatialLinesDataFrame in R) with four attributes giving the “Sub_area” of the study area, the length in km (“length_km”) of the line-feature, the functional class of the new, tall woody vegetation (“NewTWV”), and the bounding vegetation outside the polygon on a given poygon edge (“BoundVeg”). Projection is UTM zone6 with datum of WGS84. Please see NeighborCommunities_README.rtf for further details.
DOI: 10.5061/dryad.dd56c/1
title: data

description: JARVIS-FF contains the scripts used in making repository for evaluating classical force field available at http://www.ctcms.nist.gov/~knc6/periodic.html. 1) from_ctcms.py is the script to get force-fields from ctcms interatomic potential repository website (http://www.ctcms.nist.gov/potentials/) 2) ctcms_alloy.py is the scripts for setting up MPinterface (https://github.com/JARVIS-Unifies/MPInterfaces) and running LAMMPS calculation. Similar scripts have been used for other force-fields such as AIREBO,COMB, ReaxFF and so on. 3) postprocess.py is the post-procesing script after running ctcms_alloy.py 4) data.json is the classical force-field data for matrerial properties such as elastic constnats, energies. 5) get_entries_from_json.py and get_entries_from_ecjson.py is the script to compare materials project (MP) and JARVIS-FF data such as energetics, convex hull plot. Note lammps.py in MPinterfaces has been changed to MP_lammps.py. The ec.json for DFT elastic constatnt is obtained from http://datadryad.org/resource/doi:10.5061/dryad.h505v.
DOI: 10.5061/dryad.ds4gd/1
title: occurrences

description: Paleobiology Database occurrence file used for analysis
DOI: 10.5061/dryad.ds4gd/2
title: ClusteredOccurrences

description: Paleobiology Database occurrence file with regions analyzed added
DOI: 10.5061/dryad.ds4gd/3
title: PolygonCoordinates

description: List of paleocoordinates used to create regions of occurrences analyzed
DOI: 10.5061/dryad.ds4gd/4
title: PntInPoly

description: Text file with R script used to assign regions to PBDB occurrence file.
DOI: 10.5061/dryad.gn44q/1
title: Data for QTL mapping on brain size in sticklebacks

description: The data set is used in a quantitative trait locus mapping study on six brain volume traits including bulbus olfactorious, telecephalon, optic tectum, hypothalamus, cerebellum and total brain size of a F2 nine stickleback population. The data consists of 239 individuals, and 15198 non-identical SNPs. A linkage map has been constructed, and divide the SNPs into 21 linkage groups. The data are distributed as following: File1: brain_phenotype.txt  -The phenotype data of six brain traits, which have been corrected by the sex and bodysize effects. File2: genotype.txt-The SNP data, each row represents the individuals which is one-to-one match to the phenotype data file, and each column represents the SNPs which is one-to-one match to the linkage map file. The missing genotype data have been imputed, and coded as 1,0,-1 for the genotypes AA, AB and BB, respectively.File3: linkage_map.csv-The linkage map information, column1 is the marker ID, column2 is the linkage group info, and column3 is the linkage position of each SNP
DOI: 10.5061/dryad.h1m85/1
title: Top predator and mesopredator bounty data

description: Top predator and mesopredator bounty data, with all datasets scaled (z-scores). File contains bounty data from three continents (sum of all data obtained). North America data is from Saskatchewan, Canada (1982-2011). Europe data is from Bulgaria and Serbia (2000-2009). Australia data is from Queensland and is split into two zones east and west (1950-1951).
DOI: 10.5061/dryad.hj1p1/10
title: Figure S8

description: FIG. S8. Ancestral state reconstruction for the character: “Glandular tricomes on the peduncle”, on the phylogenetic hypothesis based on psbA-trnH. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/12
title: Figure S9

description: FIG. S9. Ancestral state reconstruction for the character: “Glandular tricomes on the peduncle”, on the phylogenetic hypothesis based on ITS. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/13
title: Figure S10

description: FIG. S10. Ancestral state reconstruction for the character: “Pubescence on vegetative parts”, on the phylogenetic hypothesis based on psbA-trnH. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/14
title: Figure S11

description: FIG. S11. Ancestral state reconstruction for the character: “Pubescence on vegetative parts”, on the phylogenetic hypothesis based on ITS. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/15
title: Figure S12

description: FIG. S12. Ancestral state reconstruction for the character: “Appendage margin”, on the phylogenetic hypothesis based on psbA-trnH. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/16
title: Figure S13

description: FIG. S13. Ancestral state reconstruction for the character: “Appendage margin”, on the phylogenetic hypothesis based on ITS. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/17
title: Figure S14

description: FIG. S14. Ancestral state reconstruction for the character: “Zigzag steams”, on the phylogenetic hypothesis based on psbA-trnH. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/18
title: Figure S15

description: FIG. S15. Ancestral state reconstruction for the character: “Zigzag steams”, on the phylogenetic hypothesis based on ITS. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.hj1p1/8
title: Figure S6

description: FIG. S6. Ancestral state reconstruction for the character: “Stipule shape”, on the phylogenetic hypothesis based on psbA-trnH. Circles denote the state and circles in the nodes show the proportional likelihood visually.
DOI: 10.5061/dryad.jv280/1
title: Vectormap Data

description: Vectormap data behind Figures 3 - 6, and 9.  All variables are in SI units.
DOI: 10.5061/dryad.nq67q/11
title: Genomic differentiation between sympatric Timema populations and species (part 01 of 09)

description: This is the second part of a 10 part split file. To extract contents, download all parts and concatenate. Resultant file wgs_speciation_continuum.tar.bz2 (md5sum 5ed0d1765fc6a527fe1dc82daf7b208a). For further details, please see the associated README file.
DOI: 10.5061/dryad.nq67q/12
title: Genomic differentiation between sympatric Timema populations and species (part 02 of 09)

description: This is the third part of a 10 part split file. To extract contents, download all parts and concatenate. Resultant file wgs_speciation_continuum.tar.bz2 (md5sum 5ed0d1765fc6a527fe1dc82daf7b208a). For further details, please see the associated README file.
DOI: 10.5061/dryad.nq67q/13
title: Genomic differentiation between sympatric Timema populations and species (part 03 of 09)

description: This is the fourth part of a 10 part split file. To extract contents, download all parts and concatenate. Resultant file wgs_speciation_continuum.tar.bz2 (md5sum 5ed0d1765fc6a527fe1dc82daf7b208a). For further details, please see the associated README file.
DOI: 10.5061/dryad.nq67q/14
title: Genomic differentiation between sympatric Timema populations and species (part 04 of 09)

description: This is the fifth part of a 10 part split file. To extract contents, download all parts and concatenate. Resultant file wgs_speciation_continuum.tar.bz2 (md5sum 5ed0d1765fc6a527fe1dc82daf7b208a). For further details, please see the associated README file.
DOI: 10.5061/dryad.nq67q/15
title: Genomic differentiation between sympatric Timema populations and species (part 05 of 09)

description: This is the sixth part of a 10 part split file. To extract contents, download all parts and concatenate. Resultant file wgs_speciation_continuum.tar.bz2 (md5sum 5ed0d1765fc6a527fe1dc82daf7b208a). For further details, please see the associated README file.
DOI: 10.5061/dryad.nq67q/3
title: Whole-genome transplant-and-sequence experiment
DOI: 10.5061/dryad.nq67q/4
title: Perfuming trials with no-choice copulation experiments
DOI: 10.5061/dryad.nq67q/5
title: Tests for effects of colour-pattern and CHCs on sexual isolation and genome wide FST
DOI: 10.5061/dryad.nq67q/6
title: Genomic differentiation between sympatric Timema populations and species (part 00 of 09)

description: This is the first part of a 10 part split file. To extract contents, download all parts and concatenate. Resultant file wgs_speciation_continuum.tar.bz2 (md5sum 5ed0d1765fc6a527fe1dc82daf7b208a). For further details, please see the associated README file.
DOI: 10.5061/dryad.nt91j/2
title: Table S_2_ RAFI Evaluation for sites

description: Table S_2. a) Original spreadsheets used to evaluate RAFI in the ecosystems considered in the manuscript; b) User spreadsheets to be filled with own data for computing the Relative Abundance of Trophic Resources (RAFI) in other ecosystems. Please fill only the white cells: other cells must not be modified. Do not consider empty stations: they all initially result equal to "1.0" due to lack of data until your data will be present
DOI: 10.5061/dryad.pk50t/18
title: plink_ped_file
DOI: 10.5061/dryad.pk50t/19
title: plink_map_file
DOI: 10.5061/dryad.pk50t/20
title: plink_covariates_file
DOI: 10.5061/dryad.pk50t/21
title: SKAT_covariates_file
DOI: 10.5061/dryad.pk50t/22
title: SKAT_phenotype_file
DOI: 10.5061/dryad.pk50t/23
title: SKAT_all_genotype_file

description: Variant genotypes are ordered as follows: rs560887, rs492594, rs2232328, rs2232323, rs146779637, rs2232326, rs540914059, rs16856162, rs2232321, rs181737385	, rs77719485, rs10166439, rs189856873
DOI: 10.5061/dryad.v2s71/1
title: Raw Data

description: Here we provide the raw data for each figure.
DOI: 10.5061/dryad.v9f5s/1
title: R-code

description: The file contains the R-code: (1) to compute the structural niche and fitness difference (2) to compute the contribution of multiple interactions to coexistence, and (3) to draw the feasibility domain.