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  • Introduction to MPI

    5 March 2017

    Gent, Belgium

    Elixir node event
    Introduction to MPI https://tess.elixir-europe.org/events/introduction-to-mpi The Message Passing Interface (MPI) is a standardized library specification for message passing between different processes. In layman's terms: MPI provides mechanisms for handling the data communication in a parallel program. It is particularly suited for computational clusters, where the workstations are connected by an interconnection network (e.g. Infiniband, Gigabit Ethernet). In this workshop, the applicability of MPI will be compared to other parallel programming paradigms such as OpenMP, Cuda and MapReduce. Next, the basic principles of MPI will be gradually introduced (Point-to-point communication, collective communication, MPI datatypes, etc). Hands-on exercises allow the participants to immediately turn the newly acquired skills into practice. Finally, some more theoretical considerations regarding scalability of algorithms are presented. About the lecturer: Dr. Jan Fostier. Jan received his MS and PhD degree in physical engineering from Ghent University in 2005 and 2009 respectively. Currently, he is appointed assistant professor in the department of Information Technology (INTEC) at the same university. His main research interests are (parallel) algorithms for biological sciences, high performance computing and computational electromagnetics. 2017-03-05 09:00:00 UTC 2017-03-05 00:00:00 UTC Multimediaroom building S9 Campus De Sterre, Gent, Belgium Multimediaroom building S9 Campus De Sterre Gent Belgium 9000 [] [] [] [] [] []
  • Introduction to Linux

    15 March 2017

    Gent, Belgium

    Elixir node event
    Introduction to Linux https://tess.elixir-europe.org/events/introduction-to-linux A one-day course that gets you started on Linux and the command line interface, with a particular focus on using the HPC infrastructure of Ghent University Detailed time/place info Wednesday 15 March 2017, 10.00am - 5.00pm 2017-03-15 09:00:00 UTC 2017-03-15 00:00:00 UTC Multimediaroom campus de Sterre S9, Gent, Belgium Multimediaroom campus de Sterre S9 Gent Belgium 9000 [] [] [] [] [] []
  • Introduction to multithreading and OpenMP

    18 - 19 April 2017

    Gent, Belgium

    Elixir node event
    Introduction to multithreading and OpenMP https://tess.elixir-europe.org/events/introduction-to-multithreading-and-openmp This workshop gives an introduction to shared-memory parallel programming and optimization on modern multicore systems, focusing on OpenMP. This is the dominant shared-memory programming model in computational science. Parallelism, multicore architecture and the most important shared-memory programming models are discussed. These topics are then applied in the hands-on exercises. About the lecturer: Dr. Reinhold Bader. Reinhold studied physics and mathematics at the Ludwigs-Maximilians University in Munich, completing his studies with a PhD in theoretical solid-state physics in 1998. Since the beginning of 1999, he has worked at Leibniz Supercomputing Centre (LRZ) as a member of the scientific staff, being involved in HPC user support, procurements of new systems, benchmarking of prototypes in the context of the PRACE project, courses for parallel programming, and configuration management for the HPC systems deployed at LRZ. He is currently group leader of the HPC services group at LRZ, which is responsible for operation of all HPC-related systems and system software packages at LRZ. 2017-04-18 09:00:00 UTC 2017-04-19 00:00:00 UTC Oude Infirmerie het Pand, Gent, Belgium Oude Infirmerie het Pand Gent Belgium 9000 [] [] [] [] [] []
  • OpenFOAM user meeting

    13 September 2017

    Gent, Belgium

    Elixir node event
    OpenFOAM user meeting https://tess.elixir-europe.org/events/openfoam-user-meeting The HPC-UGent team is organising an OpenFOAM user meeting, where research groups using the popular open source CFD software on the VSC infrastructure can showcase their work, and collaborate on best practices for using it on HPC clusters. More details are available at http://www.ugent.be/hpc/en/support/openfoamusermeeting 2017-09-13 09:00:00 UTC 2017-09-13 00:00:00 UTC Multimediaroom building S9 Campus De Sterre, Gent, Belgium Multimediaroom building S9 Campus De Sterre Gent Belgium 9000 [] [] [] [] [] []
  • Introduction to Linux

    13 October 2017

    Gent, Belgium

    Elixir node event
    Introduction to Linux https://tess.elixir-europe.org/events/introduction-to-linux-f2d756c5-0d9b-4e28-a4ea-70c39717a0b8 A one-day course that gets you started on Linux and the command line interface, with a particular focus on using the HPC infrastructure of Ghent University 2017-10-13 09:00:00 UTC 2017-10-13 00:00:00 UTC Multimediaroom campus de Sterre S9, Gent, Belgium Multimediaroom campus de Sterre S9 Gent Belgium 9000 [] [] [] [] [] []
  • Introduction to Machine Learning Algorithms

    23 - 24 November 2017

    Gent, Belgium

    Elixir node event
    Introduction to Machine Learning Algorithms https://tess.elixir-europe.org/events/introduction-to-machine-learning-algorithms This course offers basics of analysing datasets with machine learning algorithms and data mining techniques in order to understand foundations of learning from large quantities of data. It starts with general methods for data analysis in order to understand clustering, classification, and regression. This includes a thorough discussion of test datasets, training datasets, and validation datasets required to learn from data with a high accuracy. Easy application examples will foster the theoretical course elements that also will illustrate problems like overfitting followed by mechanisms such as validation and regularisation that prevent such problems. The course will start from a very simple application example in order to teach foundations like the role of features in data, linear separability, or decision boundaries for machine learning models. In particular this course will point to key challenges in analysing large quantities of data sets (aka ‘big data’) in order to motivate the use of parallel and scalable machine learning algorithms. Hands-on exercises allow the participants to immediately turn the newly acquired skills into practice. After this course participants will have a general understanding how to approach data analysis problems in a systematic way including knowledge where parallel computing provide benefits. About the lecturer: Prof. Dr. – Ing. Morris Riedel received his PhD from the Karlsruhe Institute of Technology (KIT) and he is the head of the ‘high productivity data processing’ research group of the Juelich Supercomputing Centre (JSC) in Germany. As an adjunct associated professor at the School of Natural Sciences and Engineering of the University of Iceland he teaches ‘High Performance Computing’, ‘Cloud Computing and Big Data’, as well as ‘Statistical Data Mining’ and all of these courses are on the intersection of parallel computing and machine learning. He has given tutorials like the course above at numerous occasions like at the Barcelona Supercomputing Centre, Smart Data Innovation Conference, or Prace Spring School in Cyprus. His research interests are parallel and scalable machine learning and data science. (More info at http://www.morrisriedel.de ) 2017-11-23 09:00:00 UTC 2017-11-24 00:00:00 UTC Multimediaroom building S9 Campus De Sterre, Gent, Belgium Multimediaroom building S9 Campus De Sterre Gent Belgium 9000 [] [] [] [] [] []
  • Deep Learning using a Convolutional Neural Network

    30 November - 12 January 2017

    Gent, Belgium

    Elixir node event
    Deep Learning using a Convolutional Neural Network https://tess.elixir-europe.org/events/deep-learning-using-a-convolutional-neural-network This course part focuses on a recent machine learning method known as deep learning that emerged as a promising disruptive approach, allowing knowledge discovery from large datasets in an unprecedented effectiveness and efficiency. It is particularly relevant in research areas, which are not accessible through modelling and simulation often performed in HPC. Traditional learning, which was introduced in the 1950s and became a data-driven paradigm in the 90s, is usually based on an iterative process of feature engineering, learning, and modelling. Although successful on many tasks, the resulting models are often hard to transfer to other datasets and research areas. This course provides an introduction into deep learning and its inherent ability to derive optimal and often quite generic problem representations from the data (aka ‘feature learning’). Concrete architectures such as Convolutional Neural Networks (CNNs) will be applied to real datasets of applications using known deep learning frameworks such as Tensorflow, Keras, or Torch. As the learning process with CNNs is extremely computational-intensive the course will cover aspects of how parallel computing can be leveraged in order to speed-up the learning process using general purpose computing on graphics processing units (GPGPUs). Hands-on exercises allow the participants to immediately turn the newly acquired skills into practice. After this course participants will have a general understanding for which problems CNN learning architectures are useful and how parallel and scalable computing is facilitating the learning process when facing big datasets. About the lecturer: Prof. Dr. – Ing. Morris Riedel received his PhD from the Karlsruhe Institute of Technology (KIT) and he is the head of the ‘high productivity data processing’ research group of the Juelich Supercomputing Centre (JSC) in Germany. As an adjunct associated professor at the School of Natural Sciences and Engineering of the University of Iceland he teaches ‘High Performance Computing’, ‘Cloud Computing and Big Data’, as well as ‘Statistical Data Mining’ and all of these courses are on the intersection of parallel computing and machine learning. He has given tutorials like the course above at numerous occasions like at the Barcelona Supercomputing Centre, Smart Data Innovation Conference, or Prace Spring School in Cyprus. His research interests are parallel and scalable machine learning and data science. (More info at http://www.morrisriedel.de ) 2017-11-30 09:00:00 UTC 2017-01-12 00:00:00 UTC Multimediaroom building S9 Campus De Sterre, Gent, Belgium Multimediaroom building S9 Campus De Sterre Gent Belgium 9000 [] [] [] [] [] []
  • HPC@UGent introduction

    17 January 2018

    Gent, Belgium

    Elixir node event
    HPC@UGent introduction https://tess.elixir-europe.org/events/hpc-ugent-introduction-dd37b1a4-1295-45fd-8447-72f2c2cf9d0d Course to jumpstart new researchers to work on the HPC infrastructure of Ghent University Detailed time/place info 17.01.2018, 10:00-17:00, Multimediaroom, campus de Sterre S9, Krijgslaan 281, 9000 Gent 2018-01-17 09:00:00 UTC 2018-01-17 00:00:00 UTC Multimediaroom campus de Sterre S9, Gent, Belgium Multimediaroom campus de Sterre S9 Gent Belgium 9000 [] [] [] [] [] []
  • Introduction to Linux

    21 February 2018

    Gent, Belgium

    Elixir node event
    Introduction to Linux https://tess.elixir-europe.org/events/introduction-to-linux-b2474cbe-966f-480e-98ed-dc32fd1171a0 Get started with Linux and command line interface, with particular focus on using the supercomputing infrastructure of Ghent University Detailed time/place info 21.02.2018, 10:00-17:00, Multimediaroom, campus de Sterre S9, Krijgslaan 281, 9000 Gent 2018-02-21 09:00:00 UTC 2018-02-21 00:00:00 UTC Multimediaroom campus de Sterre S9, Gent, Belgium Multimediaroom campus de Sterre S9 Gent Belgium 9000 [] [] [] [] [] []
  • HPC@UGent introduction

    28 March 2018

    Gent, Belgium

    Elixir node event
    HPC@UGent introduction https://tess.elixir-europe.org/events/hpc-ugent-introduction-6e0bb756-acaa-4833-8c89-a42fcf2efafa Course to jumpstart new researchers to work on the HPC infrastructure of Ghent University Detailed time/place info 28.03.2018, 10:00-17:00, Multimediaroom, campus de Sterre S9, Krijgslaan 281, 9000 Gent 2018-03-28 09:00:00 UTC 2018-03-28 00:00:00 UTC Multimediaroom campus de Sterre S9, Gent, Belgium Multimediaroom campus de Sterre S9 Gent Belgium 9000 [] [] [] [] [] []
  • Introducion to multithreading and OpenMP

    22 - 23 May 2018

    Gent, Belgium

    Elixir node event
    Introducion to multithreading and OpenMP https://tess.elixir-europe.org/events/introducion-to-multithreading-and-openmp Introduction to shared-memory parallel programming and optimization on modern multicore systems, focusing on OpenMP Detailed time/place info 22.05.2018, 9:00-18:00, Multimediaroom, campus de Sterre S9, Krijgslaan 281, 9000 Gent 23.05.2018, 9:00-18:00, Multimediaroom, campus de Sterre S9, Krijgslaan 281, 9000 Gent 2018-05-22 09:00:00 UTC 2018-05-23 00:00:00 UTC Multimediaroom campus de Sterre S9, Gent, Belgium Multimediaroom campus de Sterre S9 Gent Belgium 9000 [] [] [] [] [] []
  • Introducion to MPI

    30 May 2018

    Gent, Belgium

    Elixir node event
    Introducion to MPI https://tess.elixir-europe.org/events/introducion-to-mpi Introduction to a standardized library specification for message passing between different processes Detailed time/place info 30.05.2018, 10:00-17:00, Multimediaroom, campus de Sterre S9, Krijgslaan 281, 9000 Gent 2018-05-30 09:00:00 UTC 2018-05-30 00:00:00 UTC Multimediaroom campus de Sterre S9, Gent, Belgium Multimediaroom campus de Sterre S9 Gent Belgium 9000 [] [] [] [] [] []
  • HPC@UGent introduction

    13 June 2018

    Gent, Belgium

    Elixir node event
    HPC@UGent introduction https://tess.elixir-europe.org/events/hpc-ugent-introduction-0d847260-50ae-4d65-89f5-bc0dbc546bef Course to jumpstart new researchers to work on the HPC infrastructure of Ghent University Detailed time/place info 13.06.2018, 10:00-17:00, Multimediaroom, campus de Sterre S9, Krijgslaan 281, 9000 Gent 2018-06-13 09:00:00 UTC 2018-06-13 00:00:00 UTC Multimediaroom campus de Sterre S9, Gent, Belgium Multimediaroom campus de Sterre S9 Gent Belgium 9000 [] [] [] [] [] []
  • Advances in Computational Biology Conference 2019

    28 - 29 November 2019

    Barcelona, Spain

    Elixir node event
    Advances in Computational Biology Conference 2019 https://tess.elixir-europe.org/events/advances-in-computational-biology-conference-2019 The first **Advances in Computational Biology conference – _Fostering collaboration among women scientists_** will bring together researchers working on systems biology, omics technologies, artificial intelligence and high-performance computing with applications to biology from both the public and private sectors. One of the main purposes of the conference is to **visualize and promote the research done by women scientists** and for this reason, all presenters will be women, although the conference is open to everyone. We want to create a space to foster collaborations between scientists, providing an excellent opportunity to share ideas and build research networks. Topics included: - **Learning from Biological Sequences**: population genomics, evolutionary genomics, systems biology, transcriptomics, sequence analysis - **When Computational Biology meets Medicine**: biomedical applications, mutational landscapes, clinical genomics - **Machines Speeding up Research**: high performance computing, machine learning in the life sciences, imaging data analysis, dynamic simulations and algorithm development Key dates: - Open registration: May 6th, 2019 - Abstract submission opens: May 6th, 2019 - **Abstract submission deadline: July 1st, 2019** - Early bird registration deadline: September 15th, 2019 - Registration deadline: November 1st, 2019 - AdvCompBio Conference: November 28th - 29th, 2019 The programme will include poster and oral presentations, as well as keynotes from leading scientists in the computational biology and high-performance computing fields. The keynote speakers of the conference are: **Christine Orengo**, group leader of Orengo Group at University College London, **Natasa Przulj**, group leader of the Life Sciences – Integrative Computational Network Biology at the Barcelona Supercomputing Center and **Marie-Christine Sawley**, director of the Exascale Lab at Intel. The confirmed chairs of the conference are: **Alison Kennedy**, director of the STFC Hartree Centre, **Janet Kelso**, group leader of the Minerva Research Group for Bioinformatics at the Max Planck Institute for Evolutionary Anthropology, and **Nuria Lopez-Bigas**, leader of the Biomedical Genomics Research Group at the Institute for Research in Biomedicine Barcelona. Furthermore, the participants will have the opportunity to interact personally with female leaders in the fields of IT, academic research and politics that support the conference. The conference is organised by the Bioinfo4Women programme from the Barcelona Supercomputing Center (BSC-CNS) with the collaboration of IMIM-UPF Research Programme on Biomedical Informatics (GRIB), the Spanish National Bioinformatics Institute (INB/ELIXIR-ES) and the Universitat Politècnica de Catalunya (UPC). It is an affiliate conference of the International Society for Computational Biology (ISCB). 2019-11-28 09:00:00 UTC 2019-11-29 17:00:00 UTC La Pedrera, 92, Passeig de Gràcia, Barcelona, Spain La Pedrera, 92, Passeig de Gràcia Barcelona Barcelona Spain Imaging Machine learning Computational biology Computer science Biomedical science Sequence analysis Transcriptomics Evolutionary biology Population genomics Omics Systems biology Bioinformatics [] [] ResearchersPhD studentsPostdoctoral studentsComputer scienceComputational biologistsbioinformaticians meetings_and_conferences [] HPCBioinformaticsComputational BiologyArtificial IntelligenceGenomicsTranscriptomicsSystems biologyPopulation GenomicsEvolutinary genomicsSequence Analysisbiomedical applicationsmutational landscapesclinical genomicsImagingdynamic simulationsalgorithmsmachine learning
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