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47,155 results for “evaluations”
Establishing diversity in synthetic time series for prediction performance evaluation
<p>This dataset enables practitioners to evaluate their time series prediction algorithms on various types of time series</p>
Quality Evaluation Models or Frameworks for Open Source Software: A Systematic Literature Review (Article Pool)
<p>This pdf includes all of the articles that analyzed in the study: "Quality Evaluation Models or Frameworks for Open Source Software: A Systematic Literature Review".</p>
Behaviour-based large-scale planning Fleet Management System Evaluation
<p>This dataset was generated within the SafeLog project while evaluating the performance of a decentralized Fleet Management System (MARS). MARS attempts to find a solution to the multi-agent path finding problem in a decentralized manner, by representing each component as an autonomous agent. We compared the results of a large set of routing assignments within a benchmarking environment to a centralized planner, with respect to the goodness of the resulting routes as well as the computation time. The results can be found in the "MARS" directory within the dataset.</p> <p>We further investigated ROS 2 as a potential framework for an upcoming iteration of the software. To that end, an abstraction of the architecture was built in ROS and ROS 2, in order to compare the communication overhead in the context of a very large number of nodes. The results of this can be found in the "ROS" directory.</p> <p> </p> <p>Please refer to the README.md for further explanation.</p>
The Impact of Tool Configuration Spaces on the Evaluation of Configurable Taint Analysis for Android
<p>The data accompanying our ISSTA'2021 submission, <em>Rethinking Android Taint Analysis Evaluations: A Study of the Impact of Tool Configuration Spaces</em></p> <p> </p> <p>Structure:</p> <p><em>results</em>: contains the raw results output by AQL for the runs on Fossdroid and Google Play. Note that we wrote DroidBench results directly to CSV, so there are no "raw" results for them. Instead, see the summaries package. The collection of APKs for both datasets are also in this package.</p> <p><em>summaries</em>: contains CSV summaries of the three replications of our experiments on all three datasets (including examples of Amandroid's nondetermism on non-default configurations).</p> <p><em>datasets</em>: contains our FossDroid classified results and justifications. Please see the README.md in that package for more information.</p> <p><em>diagrams: </em>contains the graphs detailing the FlowDroid and DroidSafe configuration spaces, including their partial orders and disablement relationships.</p> <p><em>violations</em>: contains the records of violations of our partial orders.</p>
Data from: How to evaluate community predictions without thresholding?
<ol> <li>Stacked species distribution models (S-SDM) provide a tool to make spatial predictions about communities by first modelling individual species and then stacking the modelled predictions to form assemblages. The evaluation of the predictive performance is usually based on a comparison of the observed and predicted community properties (e.g., species richness, composition). However, the most available and widely used evaluation metrics require the thresholding of single species' predicted probabilities of occurrence to obtain binary outcomes (i.e., presence/absence). This binarisation can introduce unnecessary bias and error.</li> <li>Herein, we present and demonstrate the use of several groups of new or rarely used evaluation approaches and metrics for both species richness and community composition that do not require thresholding but instead directly compare the predicted probabilities of occurrences of species to the presence/absence observations in the assemblages.</li> <li> <i>Community AUC</i>, which is based on traditional AUC, measures the ability of a model to differentiate between species presences or absences at a given site according to their predicted probabilities of occurrence. Summing the probabilities gives the expected species richness and allows the estimation of the <i>probability that the observed species richness is not different from the expected species richness based on the</i><i> </i><i>species' probabilities of occurrence</i>. The traditional Sørensen and Jaccard similarity indices (which are based on presences/absences) were adapted to <i>maxSørensen</i> and <i>maxJaccard</i> and to <i>probSørensen</i> and <i>probJaccard</i> (which use probabilities directly). A further approach (<i>improvement over null</i><i> </i><i>models</i>) compared the predictions based on S-SDMs with the expectations from the null models to estimate the improvement in both species richness and composition predictions. Additionally, all metrics can be described against the environmental conditions of sites (e.g., elevation) to highlight the abilities of models to detect the variation in the strength of the community assembly processes in different environments.</li> <li>These metrics offer an unbiased view of the performance of community predictions compared to metrics that requiring thresholding. As such, they allow more straightforward comparisons of model performance among studies (i.e., they are not influenced by any subjective thresholding decisions).</li> </ol>
Fig. 2. Scuba diver using a in Are Abrolhos no-take area sites of naïve fish? An evaluation using flight initiation distance of labrids
Fig. 2. Scuba diver using a wooden handle to simulate the spearfisher behavior.
Synthetic realistic noise-corrupted PPG database and noise generator for the evaluation of PPG denoising and delineation algorithms
<p><strong>Overview </strong></p> <p>This database is meant to evaluate the performance of denoising and delineation algorithms for PPG signals affected by noise. The noise generator allows applying the algorithms under test to an artificially corrupted reference PPG signal and comparing its output to the output obtained with the original signal. Moreover, the noise generator can produce artifacts of variable intensities, permitting the evaluation of the algorithms' performance against different noise levels. The reference signal is a PPG sample of a healthy subject at rest during a relaxing session.</p> <p> </p> <p><strong>Database</strong></p> <p>The database includes 1 recording of 72 seconds of synchronous PPG and ECG signals sampled at 250 Hz using a Medicom device, ABP-10 module (Medicom MTD Ltd., Russia). It was collected from a healthy subject during an induced relaxation by guided autogenic relaxation. For more information about the data collection, please refer to the following publication: <a href="https://pubmed.ncbi.nlm.nih.gov/30094756/">https://pubmed.ncbi.nlm.nih.gov/30094756/</a></p> <p>In addition, PPG signals corrupted by the noise generator at different levels are also included in the database.</p> <p> </p> <p><strong>Realistic noise generator</strong></p> <p>Motion Artifacts in PPG signals generally appear in the form of sudden spikes (in correspondence to the subject's movement) and slowly varying offsets (baseline wander) due to the changes in distance between the skin and the sensor after every sudden movement. For this reason, conventional noise generators — using random noise drawn from different distributions such as Gaussian or Poissonian — do not allow to properly evaluate the algorithm's performance, as they can only provide unrealistic noises compared to the one commonly found in PPG signals. To overcome this issue, we designed a more realistic synthetic noise generator that can simulate those two behaviors, enabling us to corrupt a reference signal with different noise levels. The details about noise generation are available in the reference paper.</p> <p> </p> <p><strong>Data Files</strong></p> <p>The reference PPG signal can be found in <em>Datasets\GoodSignals\PPG</em> and the simultaneously acquired ECG in <em>Datasets\GoodSignals\ECG</em>. The folder <em>Datasets\NoisySignals</em> contains 340 noisy PPG signals affected by different levels of noise. The names describe the intensity of the noise (evaluated in terms of the standard deviation of the random noise used as input for the noise generator, see reference paper). Five noisy signals are produced for every noise level by running the noise generator with five random seeds each (for noise generation).</p> <p>Name convention: <em>ppg_stdx_y</em> denotes the y-th noisy PPG signal produced using a noise with a standard deviation of x.</p> <p><em>Datasets\BPMs</em> contains the ground truth for the heart-rate estimation computed in windows of 8s with an overlap of 2s.</p> <p><strong>Code</strong></p> <p>The folder <em>Code </em>contains the MATLAB scripts to generate the noisy files by generating the realistic noise with the function noiseGenerator.</p> <p><strong>When referencing this material, please cite:</strong></p> <p>Masinelli, G.; Dell'Agnola, F.; Valdés, A.A.; Atienza, D. SPARE: A Spectral Peak Recovery Algorithm for PPG Signals Pulsewave Reconstruction in Multimodal Wearable Devices. <em>Sensors</em> <strong>2021</strong>, <em>21</em>, 2725. <a href="https://doi.org/10.3390/s21082725">https://doi.org/10.3390/s21082725</a></p>
Evaluation of the silkworm lemon mutant as an invertebrate animal model for human sepiapterin reductase deficiency
Human sepiapterin reductase deficiency is an inherited disease caused by SPR gene mutations and is a monoamine neurotransmitter disorder. Here, we investigated whether the silkworm lemon mutant could serve as a model of sepiapterin reductase deficiency. A point mutation in the BmSPR gene led to a five amino acid deletion at the carboxyl terminus in the lemon mutant. In addition, classical phenotypes seen in sepiapterin reductase deficient patients were observed in the lemon mutant, including a normal phenylalanine level, a decreased dopamine and serotonin content, and an increased neopterin level. A recovery test showed that replenishment of L-dopa significantly increased the dopamine level in the lemon mutant. The silkworm lemon mutant also showed negative behavioral abilities. These results suggest that the silkworm lemon mutant has an appropriate genetic basis and meets the biochemical requirements to be a model of sepiapterin reductase deficiency. Thus, the silkworm lemon mutant can serve as a candidate animal model of sepiapterin reductase deficiency, which may be helpful in facilitating accurate diagnosis and effective treatment options of sepiapterin reductase deficiency.
Figure 5 in A Re-evaluation of the Eucnemidae larval characters (Coleoptera)
Figure 5. Eucnemidae, Macraulacinae, larval heads, ventral. (A) Dromaeolus barnabita (Villa); (B) Dromaeolus sp.; (C) Dromaeolus?badius (Melsheimer); (D) Onichodon canadensis (Brown); (E) Asiocnemis mcclayi Muona.
Figure 2 in A Re-evaluation of the Eucnemidae larval characters (Coleoptera)
Figure 2. Eucnemidae,larval heads.(A, B) Pseudomenes bakewelli (Bonvouloir), ventral,dorsal; (C, D) Schizophilus subrufus (Randall), ventral,dorsal;(E) Palaeoxenus dohrnii (Horn) dorsal,detail ventral; (F) Anischia kuscheli Lawrence,ventral. a = antenna,bt = basal tooth, ft = front tooth,l = labrum, lt = lateral tooth, m = mandible,n = nasale.
Figure 1 in A Re-evaluation of the Eucnemidae larval characters (Coleoptera)
Figure 1. Kundrata et al. (2014) elateroid relationships hypothesis with unsupported bootstrap nodes removed.
Figure 4 in A Re-evaluation of the Eucnemidae larval characters (Coleoptera)
Figure 4. Eucnemis capucinus Ahrens, larval head. (A) Main larval form; (B) prepupal larval form, dorsal; (C) prepupal form, ventral. a = antenna, bt = basal tooth, ft = front tooth, lt = lateral tooth, m = mandible.
Figure 6 in A Re-evaluation of the Eucnemidae larval characters (Coleoptera)
Figure 6. Eucnemidae, larval heads, solid wood boring types. (A) Hylochares cruentatus (Gyllenhal), dorsal; (B) Melasis pectinicornis Melsheimer, dorsal; (C) Trigonopleurus rugulosus Bonvouloir, dorsal. a = antenna, m = mandible.
Figure 3 in A Re-evaluation of the Eucnemidae larval characters (Coleoptera)
Figure 3. Eucnemidae,Melasinae, larval heads, ventral. (A) Xylophilus corticalis (Paykull); (B) Hylis cariniceps (Reitter); (C) Prodirrhagus; (D) Dirrhagofarsus ernae Otto, Muona & MvcClarin. a = antenna, bt = basal tooth, ft = front tooth, lt = lateral tooth, m = mandible.
Figure 7 in A Re-evaluation of the Eucnemidae larval characters (Coleoptera)
Figure 7. Eucnemidae, larval heads, ventral. (A) Palaeoxenus dohrnii (Horn); (B) Pseudomenes bakewelli (Bonvouloir); (C) Schizophilus subrufus (Randall); (D) Asiocnemis mcclayi Muona; (E) Melasis pectinicornis Melsheimer; (F) Rhagomicrus bonvouloiri (Say). bt = basal tooth, lt = lateral tooth, m = mentum, pps = posterior presternal sclerite, ps = presternum, sm = submentum, vs = ventral suture.
Data from: Evaluating population viability and efficacy of conservation management using integrated population models
Predicting population responses to environmental conditions or management scenarios is a fundamental challenge for conservation. Proper consideration of demographic, environmental and parameter uncertainties is essential for projecting population trends and optimal conservation strategies. We developed a coupled integrated population model-Bayesian population viability analysis to assess the (1) impact of demographic rates (survival, fecundity, immigration) on past population dynamics; (2) population viability 10 years into the future; and (3) efficacy of possible management strategies for the federally endangered Great Lakes piping plover Charadrius melodus population. Our model synthesizes long-term population survey, nest monitoring and mark–resight data, while accounting for multiple sources of uncertainty. We incorporated latent abundance of eastern North American merlins Falco columbarius, a primary predator of adult plovers, as a covariate on adult survival via a parallel state-space model, accounting for the influence of an imperfectly observed process (i.e. predation pressure) on population viability. Mean plover abundance increased from 18 pairs in 1993 to 75 pairs in 2016, but annual population growth (math formula) was projected to be 0.95 (95% CI 0.72–1.12), suggesting a potential decline to 67 pairs within 10 years. Without accounting for an expanding merlin population, we would have concluded that the plover population was projected to increase (math formula = 1.02; 95% CI 0.94–1.09) to 91 pairs by 2026. We compared four conservation scenarios: (1) no proposed management; (2) increased control of chick predators (e.g. Corvidae, Laridae, mammals); (3) increased merlin control; and (4) simultaneous chick predator and merlin control. Compared to the null scenario, chick predator control reduced quasi-extinction probability from 11.9% to 8.7%, merlin control more than halved (3.5%) the probability and simultaneous control reduced quasi-extinction probability to 2.6%. Synthesis and applications. Piping plover recovery actions should consider systematic predator control, rather than current ad hoc protocols, especially given the predicted increase in regional merlin abundance. This approach of combining integrated population models with Bayesian population viability analysis to identify limiting components of the population cycle and evaluate alternative management strategies for conservation decision-making shows great utility for aiding recovery of threatened populations.
Data from: Critically evaluating the theory and performance of Bayesian analyis of macroevolutionary mixtures
Bayesian analysis of macroevolutionary mixtures (BAMM) has recently taken the study of lineage diversification by storm. BAMM estimates the diversification-rate parameters (speciation and extinction) for every branch of a study phylogeny and infers the number and location of diversification-rate shifts across branches of a tree. Our evaluation of BAMM reveals two major theoretical errors: (i) the likelihood function (which estimates the model parameters from the data) is incorrect, and (ii) the compound Poisson process prior model (which describes the prior distribution of diversification-rate shifts across branches) is incoherent. Using simulation, we demonstrate that these theoretical issues cause statistical pathologies; posterior estimates of the number of diversification-rate shifts are strongly influenced by the assumed prior, and estimates of diversification-rate parameters are unreliable. Moreover, the inability to correctly compute the likelihood or to correctly specify the prior for rate-variable trees precludes the use of Bayesian approaches for testing hypotheses regarding the number and location of diversification-rate shifts using BAMM.
Evaluation of the silkworm lemon mutant as an invertebrate animal model for human sepiapterin reductase deficiency
<p><span>Human sepiapterin reductase deficiency is an inherited disease caused by <i>SPR</i> gene mutations and is a monoamine neurotransmitter disorder. Here, we investigated whether the silkworm <i>lemon<sup> </sup></i>mutant could serve as a model of sepiapterin reductase deficiency. A point mutation in the<i> BmSPR</i> gene led to a five amino acid deletion at the carboxyl terminus in the <i>lemon</i> mutant. In addition, classical phenotypes seen in sepiapterin reductase deficient patients were observed in the <i>lemon</i> mutant, including a normal phenylalanine level, a decreased dopamine and serotonin content, and an increased neopterin level. A recovery test showed that replenishment of L-dopa significantly increased the dopamine level in the <i>lemon<sup> </sup></i>mutant. The silkworm <i>lemon</i> mutant also showed negative behavioral abilities. These results suggest that the silkworm <i>lemon</i> mutant has an appropriate genetic basis and meets the biochemical requirements to be a model of sepiapterin reductase deficiency. Thus, the silkworm <i>lemon</i> mutant can serve as a candidate animal model of sepiapterin reductase deficiency, which may be helpful in facilitating accurate diagnosis and effective treatment options of sepiapterin reductase deficiency.</span></p>
Data from: Evaluating shell variation across different populations of a freshwater snail
The freshwater snail Potamopyrgus antipodarum has become a model system for studying invasion ecology, host–parasite coevolution, the maintenance of sexual reproduction and ecotoxicology. One understudied aspect of this snail is the variation in morphology within and among populations, which could provide insights into ecological differences across its native range. In this study of 17 New Zealand lake populations of P. antipodarum we used linear measurements and geometric morphometrics to compare several aspects of shell size and shape. We found that, except for those from Lake Te Anau, most lake populations of P. antipodarum differ slightly in shape, but differ significantly in size and in the presence of spines, where larger and spinier snails are found in deeper regions. These striking distinctions in size and shell armature, but not in shape, suggest that the various components of form are under different selective regimes. Snails from Lake Te Anau are different in both shape and size, implying that this population is diverging from the rest of the species in multiple ways, making it an interesting study population for further research.
Data from: Evaluating mechanisms of diversification in a Guineo-Congolian tropical forest frog using demographic model selection
The accumulation of biodiversity in tropical forests can occur through multiple allopatric and parapatric models of diversification, including forest refugia, riverine barriers and ecological gradients. Considerable debate surrounds the major diversification process, particularly in the West African Lower Guinea forests, which contain a complex geographic arrangement of topographic features and historical refugia. We used genomic data to investigate alternative mechanisms of diversification in the Gaboon forest frog, Scotobleps gabonicus, by first identifying population structure and then performing demographic model selection and spatially explicit analyses. We found that a majority of population divergences are best explained by allopatric models consistent with the forest refugia hypothesis and involve divergence in isolation with subsequent expansion and gene flow. These population divergences occurred simultaneously and conform to predictions based on climatically stable regions inferred through ecological niche modelling. Although forest refugia played a prominent role in the intraspecific diversification of S. gabonicus, we also find evidence for potential interactions between landscape features and historical refugia, including major rivers and elevational barriers such as the Cameroonian Volcanic Line. We outline the advantages of using genomewide variation in a model-testing framework to distinguish between alternative allopatric hypotheses, and the pitfalls of limited geographic and molecular sampling. Although phylogeographic patterns are often species-specific and related to life-history traits, additional comparative studies incorporating genomic data are necessary for separating shared historical processes from idiosyncratic responses to environmental, climatic and geological influences on diversification.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.