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  • Nanoscience and Nanotechnology 2012

    2 - 5 October 2012

    Frascati, Italy

    Nanoscience and Nanotechnology 2012 2012-10-02 00:00:00 UTC 2012-10-05 00:00:00 UTC INFN-Laboratori Nazionali di Frascati Via E. Fermi 40, 00044, Frascati, Italy Via E. Fermi 40, 00044 Frascati Italy [] [] [] meetings_and_conferences [] Nanotechnology
  • ISAtab, diXa data warehouse user interface, eChemportal

    19 March 2013

    Ispra, Italy

    ISAtab, diXa data warehouse user interface, eChemportal 2013-03-19 00:00:00 UTC 2013-03-19 00:00:00 UTC diXa Ispra, Italy Ispra Italy Metabolomics Bioinformatics [] [] [] workshops_and_courses [] toxicologytoxicogenomics
  • Elixir-IIB/NETTAB Tutorial on Biological Networks: data analysis, visualization and medical application

    18 - 19 October 2017

    Palermo, Italy

    Elixir-IIB/NETTAB Tutorial on Biological Networks: data analysis, visualization and medical application Participants in the course will be introduced to protein-protein interactions, biochemical reactions and causal interactions field. During the course the participants will be exposed to the literature curation principles and methods. In addition, there will be a session dedicated to common standards and ontologies adopted to describe data retrieved from the literature in a formalized manner. A large number of molecular interaction resources and methodologies to analyze them will be introduced during hand-on sessions. 2017-10-18 14:00:00 UTC 2017-10-19 17:30:00 UTC Luana Licata (ELIXIR-IIB Training Team and University of Rome Tor Vergata, Italy), Alberto Calderone (University of Rome Tor Vergata, Italy), Inna Kuperstein (Institut Curie, Paris, France), Allegra Via (ELIXIR-IIB Training Coordinator, IBPM-CNR, Italy) Via Ugo la Malfa, 153, Palermo, Italy Via Ugo la Malfa, 153 Palermo Provincia di Palermo Italy 90146 Protein interactions Molecular interactions, pathways and networks Istituto di Calcolo e Reti ad Alte Prestazioni (ICAR-CNR) of the Italian National Research Council ELIXIR Italy -- NETTAB PhD students, postDoc and PIs in Life Sciences, Biomedicine and Bioinformatics with little or no knowledge of network biology tools, who are interested in learning how to apply such tools in their research. 25 workshops_and_courses first_come_first_served Pathwaysprotein-protein interaction networksBiological networksdata visualizationmedical application
  • Linux shell scripting for high-throughput biological data processing on supercomputers

    16 - 17 January 2018

    Roma, Italy

    Linux shell scripting for high-throughput biological data processing on supercomputers An unprecedented amount of biomedical data have been produced and stored in the last years. Managing such biological big data is often not affordable without high-performance computing architectures, needed to analyze and process large-scale datasets. Running high-throughput (HTP) bioinformatics data pipelines on supercomputing machines requires advanced Linux shell command line and scripting skills. Most scientists working with such data often lack such skills or have acquired them by self-learning without becoming fully independent and fluent. This may have repercussions on the quality, reproducibility, and reliability of the analyses. In this two-day course, we will introduce the Linux shell and, on day one, we will show how to navigate and work with files and directories, how to combine commands to do new things, how to perform the same actions on many different files, how to filter and selectively extract data from tables, and how to find objects in files. Moreover, we will show how to connect to a remote supercomputer and how to utilise a supercomputing environment to analyse big amount of biological data, run simple shell scripts and bioinformatics pipelines. Day 2 will be wholly practical. Participants are invited to let us know in advance which are the typical file format(s) they have to deal with (e.g. fastq, table, etc), the typical processes they need to perform on them (e.g. filtering, ordering, etc.) and the typical programs they need to run (e.g. bwa, hisat2, etc.) so that we can prepare tailored practicals. Participants are also welcome to come to the course with one or more files they wish to work with, provided they do not exceed a given size. 2018-01-16 09:00:00 UTC 2018-01-17 18:00:00 UTC Allegra Via (ELIXIR-IIB Training Coordinator, IBPM-CNR, IT) Loredana Le Pera (ELIXIR-IIB Training Team, IBIOM-CNR, IT) Tiziana Castrignanò (SCAI Department, CINECA, Roma, IT) Via dei Tizii, 6B, Roma, Italy Via dei Tizii, 6B Roma Città Metropolitana di Roma Italy 00185 Data mining Bioinformatics CINECA [] Biologistsbeginner bioinformaticiansBiomedical researchersPhD Students or young researchers in molecular biology and/or genetics with little or no background in bioinformatics. 20 workshops_and_courses first_come_first_servedregistration_of_interest Unix/LinuxHTP dataShell scriptManaging and Processing datasupercomputer
  • Docker Advanced Course

    26 - 27 September 2018

    Milano, Italy

    Docker Advanced Course Docker is used to run “containers” that are essentially lightweight virtual machines. Containers are isolated from each other and use their own set of tools and libraries; they can communicate through well-defined channels. This allows to easily deploy programs since all requisites of a program are stored inside the containers. This course will provide the basic notions and tool to allow a developer to “dockerize” her programs, and to manage a set of containers, hence greatly improving the installation process. 2018-09-26 09:00:00 UTC 2018-09-27 18:00:00 UTC Gianluca Della Vedova (Department of Computer Science, University of Milano-Bicocca, IT), Loredana Le Pera (ELIXIR-IIB Training Coordinator Deputy, IBIOM-CNR, IT), Allegra Via (ELIXIR-IIB Training Coordinator, IBPM-CNR, IT) Via Bicocca degli Arcimboldi, 8, Lab. 715, U7 Building, Milano, Italy Via Bicocca degli Arcimboldi, 8, Lab. 715, U7 Building Milano Città Metropolitana di Milano Italy 20126 Computer science Bioinformatics University of Milano-Bicocca, Italy [] DevelopersDevOps in any field 20 workshops_and_courses first_come_first_servedregistration_of_interest DockerContainersVirtual machine
  • Docker and Reproducibility

    13 - 14 June 2019

    Torino, Italy

    Docker and Reproducibility Docker is a container framework for Linux that allows a developer to make easier the creation, deployment and execution of applications by using containers. During the workshop the participant will learn the core concepts of Docker and how to easily embed bioinformatic pipelines/workflows into a docker container. By the end of this course, the participants will learn: - the basic concepts of Docker; - to assess the advantages of a containerized software development & deployment; - to use Docker engine features necessary for running containerized applications; - how to use the Docker File and Docker Hub to create a Docker image; - the various networking mechanisms available in Docker. 2019-06-13 09:00:00 UTC 2019-06-14 18:00:00 UTC ELIXIR-IIB, CNR, University of Turin University of Turin, Molecular Biotechnology Center, Torino, Italy University of Turin, Molecular Biotechnology Center Torino Città Metropolitana di Torino Italy 10126 Bioinformatics Computer science University of Turin [] bioinformaticiansBiologists, Genomicists, Computer ScientistsPhD and graduate students, young researchers and PIs in the life science and computational biology field 15 workshops_and_courses first_come_first_served DockerContainersReproducibilitycomputer-science
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