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ORCID14th eScience 2018: Amsterdam, Netherlands
- 14th IEEE International Conference on e-Science, e-Science 2018, Amsterdam, The Netherlands, October 29 - November 1, 2018. IEEE Computer Society 2018, ISBN 978-1-5386-9156-4
International Workshop on Sustainable Software for Science: Practice and Experiences (WSSSPE 6.1, 2018)
Talks I
- Maria J. Cruz, Shalini Kurapati, Yasemin Turkyilmaz-van der Velden
:
The Role of Data Stewardship in Software Sustainability and Reproducibility. 1-8 - Reed Milewicz, Elaine M. Raybourn:
Talk to Me: A Case Study on Coordinating Expertise in Large-Scale Scientific Software Projects. 9-18 - Mateusz Kuzak, Jen Harrow, Rafael C. Jiménez, Paula Andrea Martínez, Fotis E. Psomopoulos, Radka Svobodová Vareková, Allegra Via:
Lesson Development for Open Source Software Best Practices Adoption. 19-20
Talks II
- Catherine Jones, Alan Kyffin, Gemma Poulter:
Reflections from a Decade of Running CCPForge. 21-22 - Jurriaan H. Spaaks, Tom Klaver, Stefan Verhoeven, Jason Maassen, Tom Bakker, Atze van der Ploeg, Ben van Werkhoven, Willem Robert van Hage, Rob V. van Nieuwpoort:
Painting the Picture of Software Impact with the Research Software Directory. 23-24
Talks III
- Stephan Druskat, Daniel S. Katz:
Mapping the Research Software Sustainability Space. 25-30 - Jeremy Cohen, Daniel S. Katz, Michelle Barker, Robert Haines, Neil P. Chue Hong:
Building a Sustainable Structure for Research Software Engineering Activities. 31-32 - Alexander Struck:
Research Software Discovery: An Overview. 33-37 - Ben van Werkhoven, Tom Bakker, Olivier Philippe, Simon Hettrick:
Survey on Research Software Engineering in the Netherlands. 38-39
Workshop on Research Objects (RO2018)
- Stian Soiland-Reyes, Marcos Cáceres:
The Archive and Package (arcp) URI Scheme. 40-44 - Bryce D. Mecum, Matthew B. Jones, David Vieglais, Craig Willis:
Preserving Reproducibility: Provenance and Executable Containers in DataONE Data Packages. 45-49 - Raúl Palma, Andrés García-Silva, José Manuél Gómez-Pérez, Marcin Krystek:
A Research Object-Based Toolkit to Support the Earth Science Research Lifecycle. 50-57
Plenary Session
- Daan de Leeuw, Mike Bryant, Michal Frankl, Ivelina Nikolova, Vladimir Alexiev:
Digital Methods in Holocaust Studies: The European Holocaust Research Infrastructure. 58-66 - Paul Roe, Meriem Ferroudj, Michael Towsey, Lin Schwarzkopf:
Catching Toad Calls in the Cloud: Commodity Edge Computing for Flexible Analysis of Big Sound Data. 67-74 - Daniyal Kazempour, Anna Beer, Friederike Herzog, Daniel Kaltenthaler, Johannes-Y. Lohrer, Thomas Seidl:
FATBIRD: A Tool for Flight and Trajectories Analyses of Birds. 75-82 - Tobias Kuhn, Albert Meroño-Peñuela, Alexander Malic, Jorrit H. Poelen, Allen H. Hurlbert, Emilio Centeno Ortiz, Laura I. Furlong, Núria Queralt-Rosinach, Christine Chichester, Juan M. Banda, Egon L. Willighagen, Friederike Ehrhart, Chris T. A. Evelo, Tareq B. Malas, Michel Dumontier:
Nanopublications: A Growing Resource of Provenance-Centric Scientific Linked Data. 83-92 - Gonzalo P. Rodrigo, Matthew L. Henderson, Gunther H. Weber, Colin Ophus, Katie Antypas, Lavanya Ramakrishnan:
ScienceSearch: Enabling Search through Automatic Metadata Generation. 93-104 - Lasse Wollatz, Mark Scott, Steven J. Johnston, Peter M. Lackie, Simon J. Cox:
Curation of Image Data for Medical Research. 105-113 - Tobias Weber, Dieter Kranzlmüller:
How FAIR Can you Get? Image Retrieval as a Use Case to Calculate FAIR Metrics. 114-124 - Nicky Nicolson, Alan Paton, Sarah Phillips, Allan Tucker:
Specimens as Research Objects: Reconciliation Across Distributed Repositories to Enable Metadata Propagation. 125-135 - Alexandar P. Mechev, Raymond Oonk, Timothy W. Shimwell, Aske Plaat, Huib Intema, Huub Rottgerin:
Fast and Reproducible LOFAR Workflows with AGLOW. 136-144 - Jose Luis Fuertes Castro, Luis Fernando Gonzalez Alvaran, Loic Antonio Martinez Normand:
Visual Programming Languages for Programmers with Dyslexia: An Experiment. 145-155 - Nicholas L. Hazekamp, Douglas Thain:
An Algebra for Robust Workflow Transformations. 156-167 - Adrien Coulier, Andreas Hellander:
Orchestral: A Lightweight Framework for Parallel Simulations of Cell-Cell Communication. 168-176 - Georgios Chantzialexiou, André Luckow, Shantenu Jha:
Pilot-Streaming: A Stream Processing Framework for High-Performance Computing. 177-188 - Jumana Dakka, Kristof Farkas-Pall, Matteo Turilli, David W. Wright, Peter V. Coveney, Shantenu Jha:
Concurrent and Adaptive Extreme Scale Binding Free Energy Calculations. 189-200 - David P. Randall, Drew Paine, Charlotte P. Lee:
Educational Outreach & Stakeholder Role Evolution in a Cyberinfrastructure Project. 201-211 - Nasir U. Eisty, George K. Thiruvathukal, Jeffrey C. Carver:
A Survey of Software Metric Use in Research Software Development. 212-222 - Kunal Lillaney, Dean Kleissas, Alexander Eusman, Eric A. Perlman, William R. Gray Roncal, Joshua T. Vogelstein, Randal C. Burns:
Building NDStore Through Hierarchical Storage Management and Microservice Processing. 223-233 - Karima Rafes, Serge Abiteboul, Sarah Cohen Boulakia, Bastien Rance:
Designing Scientific SPARQL Queries Using Autocompletion by Snippets. 234-244 - Isuru Suriarachchi, Sachith Withana, Beth Plale:
Big Provenance Stream Processing for Data Intensive Computations. 245-255 - Tyler J. Skluzacek, Rohan Kumar, Ryan Chard, Galen Harrison, Paul G. Beckman, Kyle Chard, Ian T. Foster:
Skluma: An Extensible Metadata Extraction Pipeline for Disorganized Data. 256-266
Focused Sessions
Weather & Climate Science in the Digital Era
- Peter Bauer, Martine de Vos:
Message from the eScience 2018 Program Committee Chairs for the Focused Session on Weather & Climate Science in the Digital Era. 267 - Marc Stringer, Colin Jones, Richard Hill, Mohit Dalvi, Colin Johnson, Jeremy Walton:
A Hybrid-Resolution Earth System Model. 268-269 - Fredrik Jansson, Gijs van den Oord, Pier Siebesma, Daan Crommelin:
Resolving Clouds in a Global Atmosphere Model - A Multiscale Approach with Nested Models. 270 - Jorg Behrens, Joachim Biercamp, Hendryk Bockelmann, Philipp Neumann:
Increasing Parallelism in Climate Models Via Additional Component Concurrency. 271 - Etienne Brangbour, Pierrick Bruneau, Stéphane Marchand-Maillet:
Extracting Flood Maps from Social Media for Assimilation. 272-273 - Mohan Ramamurthy:
Toward a Cloud Ecosystem for Modeling as a Service. 274-275 - Sue Ellen Haupt, Jim Cowie, Seth Linden, Tyler C. McCandless, Branko Kosovic, Stefano Alessandrini:
Machine Learning for Applied Weather Prediction. 276-277 - Driss Bari:
Visibility Prediction Based on Kilometric NWP Model Outputs Using Machine-Learning Regression. 278 - Ronald van Haren, Sytse Koopmans, Gert-Jan Steeneveld, Natalie E. Theeuwes, Remko Uijlenhoet, Albert A. M. Holtslag:
Weather Reanalysis on an Urban Scale using WRF. 279-280 - Irene Garcia Martí, Gerard van der Schrier, Jan Willem Noteboom, Paul Diks:
Detecting Probability of Ice Formation on Overhead Lines of the Dutch Railway Network. 281-282 - Martin G. Schultz, Sander Apweiler, Jan Vogelsang, Björn Hagemeier, Felix Kleinert, Daniel Mallmann:
A Web Service Architecture for Objective Station Classification Purposes. 283-284
Data Handling and Analytics for Health
- Jaap Heringa, Vincent T. van Hees:
Message from the eScience 2018 Program Committee Chairs for the Focused Session on Data Handling and Analytics for Health. 285 - Sonia Difrancesco, Vadim Zipunnikov, Robert A. Schoevers, Harriëtte Riese, Niki Antypa, Brenda W. J. H. Penninx, Kathleen R. Merikangas, Albert A. M. van Hemert, Femke Lamers:
Gross Motor Activity Patterns in Depression and Anxiety. 286 - Veli-Matti Partanen, Maiju Pankakoski, Zurab Bzhalava, Piret Veerus, Ahti Anttila, Tytti Sarkeala, Ameli Trope, Stefan Lonnberg, Sirpa Heinavaara, Joakim Dillner, Agust Ingi Agustsson:
NordScreen - An Interactive Tool for Presenting Cervical Cancer Screening Indicators in the Nordic Countries. 287 - Nicholas Baltzer, Mari Nygård, Karin Sundstrom, Joakim Dillner, Jan Nygård, Jan Komorowski:
Stratifying Cervical Cancer Risk with Registry Data. 288-289 - Lauren Roberts, Peter Michalák, Sarah E. Heaps, Michael Trenell, Darren J. Wilkinson, Paul Watson:
Automating the Placement of Time Series Models for IoT Healthcare Applications. 290-291 - Magnus Palmblad:
Semantically Enriched Literature Search Combining Text Mining, QSPR and Ontologies in Scientific Workflows. 292 - Kalle Parn, Matti Pirinen, Mart Kals, Reedik Mägi, Veikko Salomaa, Michael Boehnke, Ira Hall, Nathan Stitziel, Nelson Freimer, Mark J. Daly, Aarno Palotie, Samuli Ripatti, Priit Palta:
Differences in the Commonly used Genotype Imputation Algorithms and Their Imputation Accuracy Estimates. 293-294 - Rebecka Weegar:
Mining Events Preceding a Cancer Diagnosis. 295-296 - Shaheen A. Abdulkareem, Ellen-Wien Augustijn, Katarzyna Musial, Yaseen T. Mustafa, Tatiana Filatova:
The Impact of Social Versus Individual Learning for Agents' Risk Perception During Epidemics. 297-298 - Yassene Mohammed:
Workflows Orchestrating Workflows: Thousands of Queries and Their Fault Tolerance Using APIs of Omics Web Resources. 299-300 - Shuang Li, K. Joeri van der Velde, Morris A. Swertz:
Machine Learning for Multi-Omics Data Integration and Variant Pathogenicity Estimation. 301 - Shane Halloran, Jian Qing Shi, Yu Guan, Xi Chen, Michael Dunne-Willows, Janet A. Eyre:
Remote Cloud-Based Automated Stroke Rehabilitation Assessment Using Wearables. 302 - Arnold Kuzniar, Jason Maassen, Stefan Verhoeven, Luca Santuari, Carl Shneider, Wigard Kloosterman, Jeroen de Ridder:
A Portable and Scalable Workflow for Detecting Structural Variants in Whole-Genome Sequencing Data. 303-304 - Mai H. Nguyen, Ehab Abdelmaguid, Jolene Huang, Sanjay Kenchareddy, Disha Singla, Laura Wilke, Marcus Bobar, Eric D. Carruth, Dylan Uys, Ilkay Altintas, Evan D. Muse, Giorgio Quer, Steven R. Steinhubl:
Analytics Pipeline for Left Ventricle Segmentation and Volume Estimation on Cardiac MRI Using Deep Learning. 305-306
Advances in eScience for the Humanities and Social Sciences
- Claes H. de Vreese, Carlos Martinez-Ortiz:
Message from the eScience 2018 Program Committee Chairs for the Focused Session on Advances in eScience for the Humanities and Social Sciences. 307 - Erik-Lân Do Dinh, Iryna Gurevych, Petra Gehring:
Filter and Annotate: Towards Automatic Identification of Genuine Metaphoricity. 308-309 - Theo B. Araujo, Irina Lock, Bob van de Velde:
Extracting Theory from Black Boxes: Using Machine Vision APIs in Communication Research. 310-311 - Dafne E. van Kuppevelt, Frank W. Takes, Eelke M. Heemskerk:
Understanding Evolving Communities in Transnational Board Interlock Networks. 312-313 - Gioele Barabucci, Mark Eschweiler, Andreas Speer:
TI-One: Active Research Data Management in a Modern Philosophy Department. 314-315 - Carsten Thiel, Dieter Van Uytvanck, Tibor Kálmán:
Software Engineering and Digital Research Infrastructures. 316-317 - Johannes Daxenberger, Marc Ziegele, Iryna Gurevych, Oliver Quiring:
Automatically Detecting Incivility in Online Discussions of News Media. 318-319 - Mark Alfano, Scott W. Cunningham, Wouter Meulemans, Ignaz Rutter, Max Sondag, Bettina Speckmann, Emily Sullivan:
Social Network-Epistemology. 320-321 - Raquel Alegre, Anastasis Georgoulas, Stuart W. D. Grieve, Eleanor Robson:
Democratizing Ancient Mesopotamian Research through Digital Scholarship. 322 - Pedro Bispo Santos, Caroline Verena Wahle, Iryna Gurevych:
Using Facial Expressions of Students for Detecting Levels of Intrinsic Motivation. 323-324 - You-Wei Cheah, Drew Paine, Devarshi Ghoshal, Lavanya Ramakrishnan:
Bringing Data Science to Qualitative Analysis. 325-326 - Richard Eckart de Castilho, Jan-Christoph Klie, Naveen Kumar, Beto Boullosa, Iryna Gurevych:
Linking Text and Knowledge Using the INCEpTION Annotation Platform. 327-328 - Damian Trilling, Bob van de Velde, Anne C. Kroon, Felicia Löcherbach, Theo B. Araujo, Joanna Strycharz, Tamara Raats, Lisa De Klerk, Jeroen G. F. Jonkman:
INCA: Infrastructure for Content Analysis. 329-330
Exascale Computing for High-Energy Physics
- Jeff Templon, Yifat Dzigan:
Message from the eScience 2018 Program Committee Chairs for the Focused Session on Exascale Computing for High-Energy Physics. 331 - Jaroslava Schovancová, Simone Campana, Xavier Espinal Curull, Maria Girone, Ivan Kadochnikov, Gavin John McCance:
Understanding the Performance of a Prototype of a WLCG Data Lake for HL-LHC. 332-333 - Joaquin Bogado, Fernando Monticelli, Javier Díaz, Mario Lassnig, Ilija Vukotic:
Modelling High-Energy Physics Data Transfers. 334-335 - Diego Ciangottini, Daniele Spiga, Tommaso Boccali, Giacinto Donvito, Daniele Cesini, Giuseppe Bagliesi, Enrico Mazzoni, Antonio Falabella:
Distributed and On-demand Cache for CMS Experiment at LHC. 336-337 - Doug Benjamin, Paolo Calafiura, Taylor Childers, Kaushik De, Alessandro Di Girolamo, Esteban Fullana, Wen Guan, Tadashi Maeno, Nicolò Magini, Paul Nilsson, Danila Oleynik, Shaojun Sun, Vakho Tsulaia, Peter van Gemmeren, Torre J. Wenaus, Wei Yang:
Fine-Grained Processing Towards HL-LHC Computing in ATLAS. 338 - Tim Martin:
Implementation of the ATLAS Trigger Within the ATLAS Multi-threaded Software Framework AthenaMT. 339 - Alexey A. Poyda, Mikhail Titov, Alexei Klimentov, Jack C. Wells, Sarp H. Oral, Kaushik De, Danila Oleynik, Shantenu Jha:
Modeling Impact of Execution Strategies on Resource Utilization. 340 - V. Ananthraj, Kaushik De, Shantenu Jha, Alexei Klimentov, Danila Oleynik, Sarp H. Oral, André Merzky, Ruslan Mashinistov, Sergey Panitkin, P. Svirin, Matteo Turilli, Jack C. Wells, Sean R. Wilkinson:
Towards Exascale Computing for High Energy Physics: The ATLAS Experience at ORNL. 341-342 - Charles Leggett, Illya Shapoval:
Simulating HEP Workflows on Heterogeneous Architectures. 343 - Paolo Calafiura, Steven Farrell, Heather M. Gray, Jean-Roch Vlimant, Vincenzo Innocente, Andreas Salzburger, Sabrina Amrouche, Tobias Golling, Moritz Kiehn, Victor Estrade, Cécile Germain, Isabelle Guyon, Ed Moyse, David Rousseau, Yetkin Yilmaz, Vladimir Vava Gligorov, Mikhail Hushchyn, Andrey Ustyuzhanin:
TrackML: A High Energy Physics Particle Tracking Challenge. 344 - E. G. Patrick Bos, F. Inti Pelupessy, Vincent A. Croft, Wouter Verkerke, Carsten D. Burgard:
Automated Parallel Calculation of Collaborative Statistical Models in RooFit. 345-346 - Michael D. Hildreth, Elizabeth Sexton-Kennedy, Kevin Pedro, Matti Kortelainen:
Strategies for Modeling Extreme Luminosities in the CMS Simulation. 347 - Dalila Salamani, Stefan Gadatsch, Tobias Golling, Graeme Andrew Stewart, Aishik Ghosh, David Rousseau, Ahmed Hasib, Jana Schaarschmidt:
Deep Generative Models for Fast Shower Simulation in ATLAS. 348
Poster Session
- Ben van Werkhoven, Adriënne Mendrik, Rob van Nieuwpoort:
Poster Abstracts eScience 2018 Conference. 349 - Felicia Löcherbach, Damian Trilling:
3bij3: A Framework for Testing Effects of Recommender Systems on News Exposure. 350-351 - Tim Shaffer, Kyle M. D. Sweeney, Nathaniel Kremer-Herman, Douglas Thain:
A First Look at the JX Workflow Language. 352-353 - Viktor Bakayov, Romulo Goncalves, Raúl Zurita-Milla, Emma Izquierdo-Verdiguier:
A Spark-Based Platform to Extract Phenological Information from Satellite Images. 354-355 - Davide Ceolin, Jacco van Ossenbruggen, Lora Aroyo, Ozkan Sener, Robin Sharma, Lesia Tkacz, Julia Noordegraaf:
Assessing and Visualising Online Information Quality. 356-357 - M. E. Pozo Astigarraga:
ATLAS Trigger and Data Acquisition Upgrades for the High Luminosity LHC. 358-359 - Anna-Lena Lamprecht, Magnus Palmblad, Jon C. Ison, Veit Schwämmle:
Automated Composition of Scientific Workflows in Mass Spectrometry-Based Proteomics. 360-361 - Vedran Kasalica, Anna-Lena Lamprecht:
Automated Composition of Scientific Workflows: A Case Study on Geographic Data Manipulation. 362-363 - Claudia Schulz, Michael Sailer, Jan Kiesewetter, Elisabeth Bauer, Frank Fischer, Martin R. Fischer, Iryna Gurevych:
Automatic Recommendations for Data Coding: A Use Case from Medical and Teacher Education. 364-365 - Jamie S. Farnes, Ben Mort, Fred Dulwich, Karel Adámek, Anna Brown, Jan Novotný, Stef Salvini, Wes Armour:
Building the World's Largest Radio Telescope: The Square Kilometre Array Science Data Processor. 366-367 - Mikolaj Branowski, Adam Belloum:
Cookery: A Framework for Creating Data Processing Pipeline Using Online Services. 368-369 - Max Kemman:
Power Asymmetries of eHumanities Infrastructures. 370-371 - Claudio Atzori, Paolo Manghi, Alessia Bardi:
De-duplicating the OpenAIRE Scholarly Communication Big Graph. 372-373 - F. Inti Pelupessy, Ben van Werkhoven, Gijs van den Oord, Simon Portegies Zwart, Arjen van Elteren, Henk A. Dijkstra:
Development of the OMUSE/AMUSE Modeling System. 374 - Laurens Bogaardt, Frank W. Takes:
Estimating Subgraph Generation Models to Understand Large Network Formation. 375-376 - Elena Ranguelova, Eric J. Pauwels, Joost Berkhout:
Evaluating Layer-Wise Relevance Propagation Explainability Maps for Artificial Neural Networks. 377-378 - Rolf Hut, Niels Drost, Willem Van Hage, Nick van de Giesen:
eWaterCycle II. 379 - Priyaa Thavasimani, Jacek Cala, Paolo Missier:
Exploiting Execution Provenance to Explain Difference Between Two Data-Intensive Computations. 380-381 - Martine de Vos, Berend Weel, Adriënne M. Mendrik, Andre Dekker, Johan van Soest:
Fast and Easy Mapping of Relational Data to RDF for Rapid Learning Health Care. 382-383 - Birgitte Vedel Thage, Lene Krøl Andersen:
How to Bring Value of Domain Specific Big Data in an Interdisciplinary Way? A Software Landscape. 384-385 - Sarod Yatawatta, Hanno Spreeuw, Faruk Diblen:
Improving LBFGS Optimizer in PyTorch: Knowledge Transfer from Radio Interferometric Calibration to Machine Learning. 386-387 - Lise Stork, Andreas Weber, Eulalia Gasso Miracle, Katherine Wolstencroft:
Linking Natural History Collections. 388-389 - Dharmendra Prasad Mahato, Jasminder Kaur Sandhu:
Modeling of Load Balanced Scheduling and Reliability Evaluation for On-demand Computing Based Transaction Processing System. 390-391 - Brennan Bell, Tilman Dinter, Vlad Merticariu, Bang Pham Huu, Dimitar Misev, Peter Baumann:
Navigating Sea-Ice Timeseries Data using Tracklines. 392 - Timo Petteri Sipila, Andres Metspalu, Paavo Happola, Priit Palta, Mart Kals, Aarno Palotie:
Nordic Exome Variant Catalogue a Web Resource for Genomic Data Browsing. 393 - Luis Oliveira, David Wilkinson, Daniel Mossé, Bruce R. Childers:
Occam: Software Environment for Creating Reproducible Research. 394-395