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PEEL: A Framework for Benchmarking Distributed Systems and Algorithms [chapter]

Christoph Boden, Alexander Alexandrov, Andreas Kunft, Tilmann Rabl, Volker Markl
2017 Lecture Notes in Computer Science  
To address these problems and to foster reproducible and portable experiments and benchmarks of distributed data processing systems, we present PEEL, a framework to define, execute, analyze, and share  ...  During the last decade, a multitude of novel systems for scalable and distributed data processing has been proposed in both academia and industry.  ...  This work has been supported through grants by the German Science Foundation (DFG) as FOR1306 Stratosphere, the German Ministry for Education and Research as Berlin Big Data Center BBDC (funding mark 01IS14013A  ... 
doi:10.1007/978-3-319-72401-0_2 fatcat:3jbjnrs6ejebzaak452yzsg55m

Surface reconstruction by layer peeling

Chi-Wan Lim, Tiow-Seng Tan
2006 The Visual Computer  
[5, 6] whereby a framework is developed to adapt the geometric convection algorithm for large point sets. Template Fitting Algorithm.  ...  This "benchmark" surface manifold is then compared against the surface generated by both TightCocone and the Layer Peeling algorithm for the successive under-sampled point models.  ...  Appendix A The Layer Peeling Software The layer peeling software is an application which implements the algorithm de- A.1 Software Setting There are four parameter settings for both versions.  ... 
doi:10.1007/s00371-006-0048-9 fatcat:3fhb6ujalbdlposh7u5aaj2wwe

In Search of Dense Subgraphs: How Good is Greedy Peeling? [article]

Naga V. C. Gudapati, Enrico Malaguti, Michele Monaci
2019 arXiv   pre-print
We also introduce a new heurisitic algorithm that is built on top of the greedy and the exact methods.  ...  Thus, to approach graphs with millions of vertices and edges, one has to resort to heuristic algorithms.  ...  Acknowledgments This research was supported by "Mixed-Integer Non Linear Optimisation: Algorithms and Application" consortium, which has received funding from the European Unions EU Framework Programme  ... 
arXiv:1911.02356v1 fatcat:rlyymk5pljgk5l5vflfotmtqoy

In search of dense subgraphs: How good is greedy peeling?

Naga V. C. Gudapati, Enrico Malaguti, Michele Monaci
2021 Networks  
An extensive computational study is presented to evaluate the performance of various algorithms on a benchmark composed of 86 instances taken from the literature and real world.  ...  We also introduce a new heuristic algorithm that is built on top of the greedy and the exact methods.  ...  ACKNOWLEDGMENTS This research was supported by "Mixed-Integer Non Linear Optimisation: Algorithms and Application" consortium, which has received funding from the European Union's EU Framework Programme  ... 
doi:10.1002/net.22034 fatcat:2dbdrs6qavfmnldxjqpv7luehm

SLITronomy: Towards a fully wavelet-based strong lensing inversion technique

A. Galan, A. Peel, R. Joseph, F. Courbin, J.-L. Starck
2020 Astronomy and Astrophysics  
As there is no reason for either the lens or the source to be simple, we need methods that both invert the lens equation with a large number of degrees of freedom and also enforce a well-controlled regularisation  ...  In the latter case, wavelets moreover provide a much more tractable solution in terms of quality and computation time compared to using a source model that combines smooth analytical profiles and shapelets  ...  Birrer for useful feedback related to the integration of SLITronomy into the Lenstronomy interface, and feedback and ideas on the paper. AG thanks G. Vernardos and M.  ... 
doi:10.1051/0004-6361/202039363 fatcat:uqqhxzutnngxhdpdyr5fffnrmi

Flux Mapping: a new approach to evaluating model process representation under uncertainty

Sina Khatami, Murray C. Peel, Tim J. Peterson, Andrew W. Western
2019 Water Resources Research  
Characterised different facets of model-equifinality and discussed them within the context of conceptual hydrological modelling. • Introduced the new model evaluation method of Flux Mapping to explore  ...  model behaviour, particularly process-representation. • Even within a very narrow margin of model error/performance, different modes of model response (i.e. internal flux dynamics) can be equally active  ...  improve the manuscript by sincerely thanking Andrew Binley for suggesting the use of ternary plots reviewing the first draft of the manuscript, as well as the encouraging and constructive reviews of Hoshin  ... 
doi:10.1029/2018wr023750 fatcat:hu72tertrjazlf5rvb2jqy4e4e

The Berlin Big Data Center (BBDC)

Christoph Boden, Tilmann Rabl, Volker Markl
2018 it - Information Technology  
Framework for transparent and reproducible benchmark experiments of distributed data processing systems, approaches to foster the interpretability of machine learning models and finally provide an overview  ...  However, writing efficient implementations of data analysis programs on these systems requires a deep understanding of systems programming, prohibiting large groups of data scientists and analysts from  ...  In order to foster transparent, transferable and, thus, repeatable and reproducible experiments and benchmarks of distributed data processing systems, the BBDC researchers developed a framework called  ... 
doi:10.1515/itit-2018-0016 fatcat:mnxe772elba5rekvxds5j4xgpm

Technical Perspective DIAMetrics

Peter Boncz
2021 SIGMOD record  
Benchmarking database systems has a long and successful history in making industrial database systems comparable, and is also a cornerstone of quantifiable experimental data systems research.  ...  operations, and data distributions should come together in order to invoke a particularly challenging task1.  ...  ., describes a versatile framework, developed in Google, for automatic extraction of benchmarks and their distributed execution and performance monitoring.  ... 
doi:10.1145/3471485.3471491 fatcat:2po7xbkqkbgcnc5jpledjgoqci

The ground truth about metadata and community detection in networks

Leto Peel, Daniel B. Larremore, Aaron Clauset
2017 Science Advances  
We prove that no algorithm can uniquely solve community detection, and we prove a general No Free Lunch theorem for community detection, which implies that there can be no algorithm that is optimal for  ...  We illustrate this point by introducing two statistical techniques that can quantify the relationship between metadata and community structure for a broad class of models.  ...  Data and materials availability: All data needed to evaluate the conclusions in the paper are present in the paper and/or the Supplementary Materials.  ... 
doi:10.1126/sciadv.1602548 pmid:28508065 pmcid:PMC5415338 fatcat:4pnl5irrubd3xgjuazw64vuaqe

Financial Incentives for Transcatheter Aortic Valve Implantation in Ontario, Canada: A Cost‐Utility Analysis

John K. Peel, Rafael Neves Miranda, David Naimark, Graham Woodward, Mamas A. Mamas, Mina Madan, Harindra C. Wijeysundera
2022 Journal of the American Heart Association : Cardiovascular and Cerebrovascular Disease  
The objective of this study was to determine the maximum cost‐effective investment in TAVI care that should be made at a health system level to meet quality indicator goals.  ...  Costs and health utilities were accrued over a 2‐year time horizon.  ...  Patients enter the simulation in the wait-list state, and are assigned a wait time for elective transcatheter aortic valve implantation (TAVI) from a log-normal time-to-event distribution.  ... 
doi:10.1161/jaha.121.025085 pmid:35411786 pmcid:PMC9238449 fatcat:jw2y3ztydferjgkswmmc3forja

Advancing point of care diagnostics for the control and prevention of STIs: the way forward

Igor Toskin, Karel Blondeel, Rosanna W Peeling, Carolyn Deal, James Kiarie
2017 Sexually Transmitted Infections  
As a component of the WHO Global Health Sector Strategy for the control and prevention of STIs, there has been a growing recognition of the importance of integrating point-of-care tests (POCTs) into overall  ...  WHO recognises the global impact of sexually transmitted infections (STIs) on global public health and individual sexual and reproductive health and well-being.  ...  ideas for uptake, and the clinic and social systems in the local area.  ... 
doi:10.1136/sextrans-2016-053073 pmid:29223966 fatcat:o7njev4h5zeh5jcveyible2ghe

RUSH: A RobUst ScHeduler to Manage Uncertain Completion-Times in Shared Clouds

Zhe Huang, Bharath Balasubramanian, Michael Wang, Tian Lan, Mung Chiang, Danny H. K. Tsang
2016 2016 IEEE 36th International Conference on Distributed Computing Systems (ICDCS)  
Specifically, we present a scheduling problem that jointly accounts for: (i) job utilities specified as functions of their completion-time, and (ii) uncertainty in the jobs' runtime.  ...  We implement this as a robust scheduler, named RUSH, for YARN in Hadoop. Our experiments, using real-world data sets, illustrate RUSH's efficacy when compared with other commonly used schedulers.  ...  In this paper, we propose a robust optimization framework called RUSH, that accounts for various uncertainties through a quantitative model and enables a robust scheduling framework for utility optimization  ... 
doi:10.1109/icdcs.2016.95 dblp:conf/icdcs/HuangBWLCT16 fatcat:ph54b2nkk5hh3hjt35gzgpmfhu

Accelerated Path-Based Timing Analysis with MapReduce

Tsung-Wei Huang, Martin D.F. Wong
2015 Proceedings of the 2015 Symposium on International Symposium on Physical Design - ISPD '15  
Therefore, we introduce in this paper a fast and scalable PBA framework with MapReduce -a recent programming paradigm invented by Google for big-data processing.  ...  Inspired by the spirit of MapReduce, we formulate our problem into tasks that are associated with keys and values and perform massivelyparallel map and reduce operations on a distributed system.  ...  The MapReduce library automatically schedules parallel map and reduce operations linking mapper and reducer to handle the input data on a distributed system.  ... 
doi:10.1145/2717764.2717771 dblp:conf/ispd/HuangW15 fatcat:yftdw2ypzbgtvc2tnzutzhopia

Modular Assessment of Rainfall-Runoff Models Toolbox (MARRMoT) v1.0: an open- source, extendable framework providing implementations of 46 conceptual hydrologic models as continuous space-state formulations

Wouter J. M. Knoben, Jim E. Freer, Keirnan J. A. Fowler, Murray C. Peel, Ross A. Woods
2019 Geoscientific Model Development Discussions  
</strong> This paper presents the Modular Assessment of Rainfall-Runoff Models Toolbox (MARRMoT): a modular open-source toolbox containing documentation and model code for 46 existing conceptual hydrologic  ...  In addition to this paper and its Supporting Materials, a User Manual is provided together with several workflow scripts that show basic example applications of the toolbox.  ...  on how to create a new flux equation or model. shows the setup of the MARRMoT framework and what the framework requires (i.e. data, model options, etc.) and provides for a given modelling study.  ... 
doi:10.5194/gmd-2018-332 fatcat:avt64ufsdjcjdgaiy5ou2ndcia

Rapid MinION profiling of preterm microbiota and antimicrobial-resistant pathogens

Richard M. Leggett, Cristina Alcon-Giner, Darren Heavens, Shabhonam Caim, Thomas C. Brook, Magdalena Kujawska, Samuel Martin, Ned Peel, Holly Acford-Palmer, Lesley Hoyles, Paul Clarke, Lindsay J. Hall (+1 others)
2019 Nature Microbiology  
Our results demonstrate that MinION (including cost-effective Flongle flow cells) with NanoOK RT can process metagenomic samples to a rich dataset in < 5 h, which creates a platform for future studies  ...  aimed at developing these tools and approaches in clinical settings with a focus on providing tailored patient antimicrobial treatment options.  ...  The mixture was incubated at 37 °C for 1 h; 100 µl of Proteinase K at 20 mg ml −1 (Roche Molecular Systems), 30 µl of RNase A at 10 mg ml −1 (Roche Molecular Systems), 400 µl of 0.5 M EDTA, pH 8.0, and  ... 
doi:10.1038/s41564-019-0626-z pmid:31844297 pmcid:PMC7044117 fatcat:lsz5fp7dozayhiywjcjcquzhte
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