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  • Training course on Python for Life Scientists

    11 - 15 September 2017

    Roma, Italy

    Training course on Python for Life Scientists https://tess.elixir-europe.org/events/training-course-on-python-for-life-scientists Python is an object-oriented programming language that is ideal for biological data analysis. The course will start from zero knowledge, and will introduce the participants to all the basic concepts of Python such as calculating, organizing data, reading and writing files, program logic and writing larger programs. All the examples and practical sessions will focus on solving biological problems. In particular the sessions will cover: - working with DNA and protein sequences - data retrieval from files and their manipulation - running applications, such as BLAST, locally and from a script - finding motifs in sequence - parsing common file formats (Uniprot, GenBank, PDB) - ways to find and correct program errors. The course will be highly interactive and the students will continuously put theory into practice while learning. Basic Unix/Linux skills will be provided at the beginning of the course. 2017-09-11 09:00:00 UTC 2017-09-15 18:00:00 UTC Veronica Morea (CNR-IBPM, Rome, Italy), Allegra Via (ELIXIR-IIB Training Coordinator, CNR-IBPM, Italy), Loredana Le Pera (ELIXIR-IIB Training Team, IIT@Sapienza, Italy) Dipartimento di Scienze Biochimiche - Alessandro Rossi Fanelli, 332, Viale Regina Elena, Roma, Italy Dipartimento di Scienze Biochimiche - Alessandro Rossi Fanelli, 332, Viale Regina Elena Roma Città Metropolitana di Roma Italy 00185 Computer science Bioinformatics Computational biology Sapienza University of Rome elixir.ita.training@gmail.com, loredanalepera@gmail.com ELIXIR Italy BiologistsBioinformatics beginners 20 workshops_and_courses first_come_first_servedregistration_of_interest Python for BiologistsbioinformaticsComputer ProgrammingBiological databasesPython
  • 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 https://tess.elixir-europe.org/events/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 elixir.ita.training@gmail.com [] 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
  • 6th International Summer School on Rare Disease and Orphan Drug Registries

    10 - 14 September 2018

    Roma, Italy

    6th International Summer School on Rare Disease and Orphan Drug Registries https://tess.elixir-europe.org/events/6th-international-summer-school-on-rare-disease-and-orphan-drug-registries The "6th International Summer School on Rare Disease and Orphan Drug Registries" is organized by the National Centre for Rare Diseases – Istituto Superiore di Sanità in collaboration with RD-Connect, ELIXIR-IT, ELIXIR-NL, EURORDIS, Orphanet, EuRRECa, European Reference Networks, EPIRARE and ICORD. Registries are key resources in order to increase timely and accurate diagnosis, improve patients management, tailor treatments, facilitate clinical trials, support healthcare planning and speed up research. The course will provide participants with useful tools and methodologies for establish a registry, the quality of the data collected and how a registry is turned into a FAIR resource. It intends i) to promote the establishment of Findable, Accessible, Interoperable, Reusable (FAIR) registries in compliance with IRDiRC and EU Recommendations and ii) to support cooperation among different registry stakeholders and coordination with registries that are developed within European Reference Networks and National Plans in the EU. 2018-09-10 08:00:00 UTC 2018-09-14 17:30:00 UTC D. Taruscio, M. Roos, C. Carta Istituto Superiore di Sanità, Via Giano della Bella, 34, Roma, Italy Istituto Superiore di Sanità, Via Giano della Bella, 34 Roma Città Metropolitana di Roma Italy Rare diseases Istituto Superiore di Sanità rareregistries-school@iss.it [] database managersregistry curators health professionalsresearchersmedical specialists 27 workshops_and_courses registration_of_interest Registryrare diseaseFindableAccessibleInteroperableReusableFAIR
  • ELIXIR-EXCELERATE Train the Trainer

    27 - 28 September 2018

    Roma, Italy

    ELIXIR-EXCELERATE Train the Trainer https://tess.elixir-europe.org/events/elixir-excelerate-train-the-trainer-3543b257-3127-4858-9659-ab34e27ababf ELIXIR-EXCELERATE, in collaboration with ELIXIR-IIB, is pleased to announce a Train the Trainer (TtT) event. This course is meant to offer guidance, ideas and tips for training/teaching design, development and delivery based on research-driven educational principles. Examples and discussions will also focus on the challenges presented by academic teaching. 2018-09-27 09:00:00 UTC 2018-09-28 18:00:00 UTC Allegra Via, Patricia Palagi, Loredana Le Pera p.le Aldo Moro 7, Roma, Italy p.le Aldo Moro 7 Roma Città Metropolitana di Roma Italy 00185 Italian National Research Council elixir.ita.training@gmail.com [] teachersTrainersAnyone who wants to become a teacher / trainer or a better one 20 workshops_and_courses registration_of_interestfirst_come_first_served Educational psychologyteaching practicesTrain the trainerTtT
  • Carpentries Instructor Training - ATHENA RC

    15 - 17 July 2019

    Athens, Greece

    Carpentries Instructor Training - ATHENA RC https://tess.elixir-europe.org/events/carpentries-instructor-training-athena-rc Find out more at https://fpsom.github.io/2019-07-15-ttt-ELIXIR-Athens/ 2019-07-15 12:00:00 UTC 2019-07-17 12:00:00 UTC Center for Research and Technology Hellas Athena Research & Innovation Center in Information Communication & Knowledge Technologies, 6, Artemidos, Athens, Greece Athena Research & Innovation Center in Information Communication & Knowledge Technologies, 6, Artemidos Athens Greece [] Fotis E. Psomopoulos <fpsom@certh.gr> [] [] 25 workshops_and_courses first_come_first_served []
  • 4 Simple recommendations for Open Source Software workshop

    17 - 19 July 2019

    Athens, Greece

    4 Simple recommendations for Open Source Software workshop https://tess.elixir-europe.org/events/4-simple-recommendations-for-open-source-software-workshop Find out more at https://fpsom.github.io/2019-07-15-ttt-ELIXIR-Athens/ 2019-07-17 12:00:00 UTC 2019-07-19 12:00:00 UTC Center for Research and Technology Hellas Athena Research & Innovation Center in Information Communication & Knowledge Technologies, 6, Artemidos, Athens, Greece Athena Research & Innovation Center in Information Communication & Knowledge Technologies, 6, Artemidos Athens Greece [] Fotis E. Psomopoulos <fpsom@certh.gr> [] [] workshops_and_courses first_come_first_served []
  • International Summer School on Rare Disease Registries and FAIRification of Data

    23 - 27 September 2019

    Roma, Italy

    International Summer School on Rare Disease Registries and FAIRification of Data https://tess.elixir-europe.org/events/international-summer-school-on-rare-disease-registries-and-fairification-of-data Registries are key resources in order to increase timely and accurate diagnosis, improve patients management, tailor treatments, facilitate clinical trials, support healthcare planning and speed up research. This course is composed of two training modules: The first module “Rare Disease Registries” starts on September 23 till September 25, 2019, during these three days participants will learn (a) what resources are needed for the establishment / maintenance of a high quality registry (b) the features of successful strategies to ensure (i) long-time sustainability of the registry, (ii) quality, (iii) legal and ethical issues in compliance with the EU General Data Protection Regulation and (iv) FAIR principles The second module “FAIRification of data”, starts on September 26 till September 27, 2019 during these two days participants, working with IT-trainers, will make use case data FAIR. The potential of a FAIR registry, as the basis for cross resource questions, will be demonstrated by executing a query across the use cases that become FAIR. In this part a time slot will be allocated to discuss FAIR data management and FAIR project planning. 2019-09-23 09:00:00 UTC 2019-09-27 18:00:00 UTC European Joint Programme on Rare Diseases (EJP-RD), Istituto Superiore di Sanità of Italy Via Giano della Bella, 34, Roma, Italy Via Giano della Bella, 34 Roma Città Metropolitana di Roma Italy Rare diseases Istituto Superiore di Sanità claudio.carta@iss.it [] Cliniciansmedical specialistsregistry curatorsdatabase managershealthcare professionals rare disease patients representatives workshops_and_courses first_come_first_servedregistration_of_interest Rare DiseasesRegistryethical issues
  • Practical Data and Software Skills for Reproducible Research Workshops

    2 - 4 October 2019

    Roma, Italy

    Practical Data and Software Skills for Reproducible Research Workshops https://tess.elixir-europe.org/events/practical-data-and-software-skills-for-reproducible-research-workshops Two one-day introductory workshops on the skills and technologies you need for publishable and reproducible data-driven science. People can register for one or both workshops. Practical Data Skills Workshop: 2-3 October, 2019 Practical Software Skills Workshop: 3-4 October, 2019 Working with “Big data” is challenging for most researchers and the barriers to publication can be difficult. These workshops introduce free open-source approaches that reduce these challenges and help you deliver research that is more impactful, open, and reproducible. Training will focus on solutions developed by publicly funded cyberinfrastructure developed in the US (CyVerse) and Europe (CyVerse UK, ELIXIR, EOSC, and others). Lessons learned will prepare you with skills you can apply no matter which computing platforms you use. 2019-10-02 14:30:00 UTC 2019-10-04 14:30:00 UTC University of Arkansas in collaboration with Cold Spring Harbor Laboratory, the National Research Council of Italy, Earlham Institute, Center for Research and Technology Hellas (CERTH), the Netherlands eScience Center and the University of Arizona University of Arkansas Rome Center: Palazzo Taverna, Via di Monte Giordano, 36 - 00186 Rome Italy., Roma, Italy University of Arkansas Rome Center: Palazzo Taverna, Via di Monte Giordano, 36 - 00186 Rome Italy. Roma Città Metropolitana di Roma Italy 00186 University of Arkansas Jason Williams (Cold Spring Harbor Laboratory, NY) Email: Williams@cshl.edu University of Arkansas Investigators and researchers working in all areas of the life sciences. workshops_and_courses first_come_first_served Open scienceReproducible ResearchData skillsSoftware skills
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