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223 events found

  • Bioinformatics Introductory course

    16 Jan - 21 Mar 2017

    Uppsala, Sweden

    Bioinformatics Introductory course https://tess.elixir-europe.org/events/bioinformatics-introductory-course Objective: The course aims to give a solid basis in basic bioinformatics methods. It covers the theories, algorithms and practical applications of computer-based methodology for the analysis of Nucleic and protein sequences. On completion of the course, the student should be able to: - account for the fundamental concepts within bioinformatics - independently carry out homology analyses of both protein - and DNA sequences and interpret the results - use the most common commands in Unix/Linux, - independently build a "workbench" for bioinformatics with publicly available software suited to the students own needs, - use biological databases - independently use technologies and analysis of Next Generation Sequencing data. and - manage methods for the analysis of expression data. Content: The course covers bioinformatics methods such as theories, algorithms and practical applications in computer-based methodology for the analysis of DNA and protein sequences. The course also covers theories for the analysis of RNAseq expression data and different analytical methods related to Next Generation Sequencing. Topics to be covered includes: biological databases, homology analyses, gene analyses (emphasis on software packages like e.g. EMBOSS and UGENE), web-based analytical tools, Unix OS, comparative genomics, functional genomics, GWAS analysis, molecular evolution, RNAseq expression analysis, annotation of new genomes. The course is based on lectures, exercises and project work. Apart from the written and the oral examination, compulsory components occur within e. g. exercises, project work and laboratory sessions. 2017-01-16 13:55:00 UTC 2017-03-21 13:55:00 UTC Swedish University of Agricultural Sciences Uppsala Biocenter, Uppsala, Sweden Uppsala Biocenter Uppsala Uppsala Sweden
  • The Genomics Era: the Future of Genetics in Medicine

    20 Feb - 27 Mar 2017

    The Genomics Era: the Future of Genetics in Medicine https://tess.elixir-europe.org/events/the-genomics-era-the-future-of-genetics-in-medicine-6c93a777-54db-49f8-86f9-3be4bd91f87a Get an introduction to the growing role of genomics in healthcare, for patient diagnoses, treatment and disease prevention. 2017-02-20 09:00:00 UTC 2017-03-27 00:00:00 UTC St George's, University of London
  • An Introduction to Solving Biological Problems with R

    23 - 24 Feb 2017

    Cambridge, United Kingdom

    An Introduction to Solving Biological Problems with R https://tess.elixir-europe.org/events/an-introduction-to-solving-biological-problems-with-r-0852fc6c-7989-4301-bb84-c5e0de7c941d This course provides an introduction to the R programming language and software environment for statistical computing and graphics. A variety of examples with a biological theme will be presented. The course website providing links to the course materials is [here](http://cambiotraining.github.io/r-intro/). Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=1923690&course-title=An%20Introduction%20to%20Solving%20Biological%20Problems%20with%20R).'' 2017-02-23 09:30:00 UTC 2017-02-24 17:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR
  • Software Carpentry - West Virginia University

    24 - 25 Feb 2017

    Morgantown, United States

    Software Carpentry - West Virginia University https://tess.elixir-europe.org/events/software-carpentry-west-virginia-university Find out more at https://marwahaha.github.io/2017-02-24-WVU/ 2017-02-24 09:00:00 UTC 2017-02-25 00:00:00 UTC Software Carpentry West Virginia University, Morgantown, United States West Virginia University Morgantown United States
  • Software Carpentry - Integrated Learning Center (ILC)

    25 - 26 Feb 2017

    Tucson, United States

    Software Carpentry - Integrated Learning Center (ILC) https://tess.elixir-europe.org/events/software-carpentry-integrated-learning-center-ilc Find out more at https://uhilgert.github.io/2017-02-25-CyVerse/ 2017-02-25 09:00:00 UTC 2017-02-26 00:00:00 UTC Software Carpentry Integrated Learning Center (ILC), Tucson, United States Integrated Learning Center (ILC) Tucson United States
  • VIB Community Meeting - Bioinformatics and Computational Biology

    27 Feb 2017

    Brussels, Belgium

    VIB Community Meeting - Bioinformatics and Computational Biology https://tess.elixir-europe.org/events/vib-community-meeting-bioinformatics-and-computational-biology Lennart Martens (VIB-UGent CompOmics) and Alexander Botzki (VIB Bioinformatics Core) organise an interactive VIB Community Meeting on Bioinformatics and Computational Biology on the 27th of February 2017 in Brussels. In order to foster the VIB-wide collaboration among bioinformaticians, we would like to organise open discussion sessions around several field-related topics. The idea is to organize 3 short presentations (max. 15 min.) on innovative matter per topic, followed by 30 min. discussions each. The day will be closed by a plenary brainstorm session on ideas which have been put forward to pursue in the parallel sessions. A preliminary agenda for the meeting can be found below. Program: VIB Community Meeting: Bioinformatics and Computational Biology.pdf​ ​​​​ 2017-02-27 09:00:00 UTC 2017-02-27 16:30:00 UTC VIB Bioinformatics Core U-Residence, Brussels, Belgium U-Residence Brussels Belgium 1050
  • Software Carpentry - Shapiro Undergraduate Library

    27 - 28 Feb 2017

    Ann Arbor, United States

    Software Carpentry - Shapiro Undergraduate Library https://tess.elixir-europe.org/events/software-carpentry-shapiro-undergraduate-library Find out more at https://umswc.github.io/2017-02-27-umich/ 2017-02-27 09:00:00 UTC 2017-02-28 00:00:00 UTC Software Carpentry Shapiro Undergraduate Library, Ann Arbor, United States Shapiro Undergraduate Library Ann Arbor United States
  • Software Carpentry - University of Technology, Sydney

    27 Feb - 08 Mar 2017

    Ultimo, Australia

    Software Carpentry - University of Technology, Sydney https://tess.elixir-europe.org/events/software-carpentry-university-of-technology-sydney-b48b6654-4426-4c97-8650-998a91606598 Find out more at http://daryavanichkina.com/2017-02-27-UTS/ 2017-02-27 09:00:00 UTC 2017-03-08 00:00:00 UTC Software Carpentry University of Technology, Sydney, Ultimo, Australia University of Technology, Sydney Ultimo Australia
  • Bioinformatics for Molecular Biologists (4-day course)

    27 Feb - 03 Mar 2017

    Inchinnan, United Kingdom

    Bioinformatics for Molecular Biologists (4-day course) https://tess.elixir-europe.org/events/bioinformatics-for-molecular-biologists-4-day-course-92d3ed0d-4d9a-4a55-81d6-a4dd377c3fe3 Over 4 days you will explore the open source world associated to bioinformatics with our experts. You will be introduced with various topics, from the basics of Linux, to widely used programming languages such as Perl™ and Python™ and the world’s most popular open source database MySQL™. A well balanced combination of lectures and practical sessions will reinforce new learning progressively building momentum towards a practical project where the newly acquired knowledge will be applied. New powerful options will be introduced to give you more confidence when handling large datasets. Ultimately, you will discover what’s beyond rigid user interfaces and apply your learning with real data. • Manage your own database (create your knowledge base). Free yourself from spreadsheets! • Personalise your analysis beyond options. Available in Torrent Browser or Ion Reporter™ software •Parse your VCF (extract information from flat files). Compare different samples and find the most common variants 2017-02-27 13:13:00 UTC 2017-03-03 13:13:00 UTC Thermo Fisher Scientific Thermo Fisher Scientific - Customer Experience Centre 3 Fountain Drive Inchinnan Business Park PA4 9RF Paisley United Kingdom, Inchinnan, United Kingdom Thermo Fisher Scientific - Customer Experience Centre 3 Fountain Drive Inchinnan Business Park PA4 9RF Paisley United Kingdom Inchinnan Renfrewshire United Kingdom PA4 9RF
  • EMBL-EBI: Interactions & Pathways - Reactome

    28 Feb 2017

    Cambridge, United Kingdom

    EMBL-EBI: Interactions & Pathways - Reactome https://tess.elixir-europe.org/events/embl-ebi-interactions-pathways-reactome-f28ac773-8e34-44b5-ad1d-7a4b8e311f04 This workshop will give an introduction to the [Reactome](http://www.reactome.org) pathway database website and analysis tools, using short presentations and practical hands-on exercises. The session will also explain where to learn more, get help, and how to become involved in adding more pathway information to Reactome. Further information can be found [here](https://www.ebi.ac.uk/training/events/2015/interactions-pathways-reactome-1). Also note: This event is part of a series of short introductions focusing on EMBL-EBI resources. If you want to learn more about these separate training events, see the Related Courses section below. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=1994156&course-title=EMBL-EBI:%20Interactions%20and%20Pathways%20-%20Reactome).'' 2017-02-28 09:00:00 UTC 2017-02-28 11:45:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR
  • EMBL-EBI: Interactions & Pathways - Reactome

    28 Feb 2017

    Cambridge, GB

    EMBL-EBI: Interactions & Pathways - Reactome https://tess.elixir-europe.org/events/embl-ebi-interactions-pathways-reactome-76985dc4-6a0b-4f01-aeb5-368b10b1f33a This workshop will give an introduction to the Reactome pathway database website and analysis tools, using short presentations and practical hands-on exercises. 2017-02-28 09:00:00 UTC 2017-02-28 11:45:00 UTC University of Cambridge, Cambridge, GB University of Cambridge Cambridge GB CB2 3AR
  • Linux scripting

    28 Feb 2017

    Heverlee, Belgium

    Linux scripting https://tess.elixir-europe.org/events/linux-scripting This course will give an introduction to Linux scripting and a short summary of possible Linux tools used in scripts: Linux scripting (Bash shell) Basic loops in Linux Useful commands: grep, cut Linux tools: awk, sed Using Linux scripting in writing PBS scripts for HPC This course provides several hands-on sessions Detailed time/place info 28.02.2017, 9:00-13:00 2017-02-28 09:00:00 UTC 2017-02-28 00:00:00 UTC ICTS opleidingscentrum B, Heverlee, Belgium ICTS opleidingscentrum B Heverlee Belgium 3001
  • Python in High Performance Computing @ CSC

    1 - 3 Mar 2017

    Python in High Performance Computing @ CSC https://tess.elixir-europe.org/events/python-in-high-performance-computing-csc-e3728e4c-ff6c-473c-8965-53f474b4b312 THE COURSE IS FULLY BOOKED! Thanks to those of you who have already registered for our "Python in High Performance Computing @ CSC" training course! The course is now fully booked! Moreover, the limit has also been reached for our waiting list (10 persons max.). if you have registered to this course and you are not able to attend, please CANCEL your registration as soon as possible by sending an email to patc at csc.fi. We will keep all potantial candidates further informed of whether they are enrolled into the course or not. Please note that the waiting list is handled on a first come/first serve basis. Welcome to the course! Description Python programming language has become popular in scientific computing due to many benefits it offers for fast code development. Unfortunately, the performance of pure Python programs is often sub-optimal, but fortunately this can be easily remedied. In this course we teach various ways to optimise and parallelise Python programs. Among the topics are performance analysis, efficient use of NumPy arrays, extending Python with more efficient languages (Cython), and parallel computing with task based (multiprocessing) and message passing (mpi4py) approaches. Learning outcome After the course participants are able to analyse performance of Python programs, and are familiar with various ways to optimise and parallelise them. Prerequisites Some experience in Python programming. Agenda Day 1, Wednesday 1.3 Efficient use of NumPy Performance analysis Day 2, Thursday 2.3 Optimisation with Cython Parallel computing with multiprocessing Day 3, Friday 3.3 Parallel computing with mpi4py   Lecturers:   Jussi Enkovaara (CSC), Martti Louhivuori (CSC) Language:  EnglishPrice:          Free of charge https://events.prace-ri.eu/event/594/ 2017-03-01 07:00:00 UTC 2017-03-03 14:00:00 UTC
  • Technical Hackathon on Implementing Visual Workflows in bio.tools

    1 - 3 Mar 2017

    Technical Hackathon on Implementing Visual Workflows in bio.tools https://tess.elixir-europe.org/events/technical-hackathon-on-implementing-visual-workflows-in-bio-tools 2017-03-01 09:00:00 UTC 2017-03-03 00:00:00 UTC Tallinn Tallinn
  • Strategic workshop "The future of proteomics in ELIXIR"

    1 - 2 Mar 2017

    Strategic workshop "The future of proteomics in ELIXIR" https://tess.elixir-europe.org/events/strategic-workshop-the-future-of-proteomics-in-elixir 2017-03-01 09:00:00 UTC 2017-03-02 00:00:00 UTC Tübingen Tübingen
  • Introduction to machine learning with R

    1 - 2 Mar 2017

    Cambridge, United Kingdom

    Introduction to machine learning with R https://tess.elixir-europe.org/events/introduction-to-machine-learning-with-r This course provides a broad introduction to machine learning. Several state-of-the-art machine learning algorithms will be presented, with a focus on classification techniques using KNN, decision trees and random forests. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=1923419&course-title=Introduction%20to%20machine%20learning%20with%20R).'' 2017-03-01 09:30:00 UTC 2017-03-02 17:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR
  • Software Carpentry - EPSRC & MRC Centre for Doctoral Training in Regenerative Medicine, University of Manchester

    2 - 3 Mar 2017

    Software Carpentry - EPSRC & MRC Centre for Doctoral Training in Regenerative Medicine, University of Manchester https://tess.elixir-europe.org/events/software-carpentry-epsrc-mrc-centre-for-doctoral-training-in-regenerative-medicine-university-of-manchester-fd7bd44e-4723-4492-8f39-d809a143444b Find out more at https://anenadic.github.io/2017-03-02-manchester/ 2017-03-02 09:00:00 UTC 2017-03-03 00:00:00 UTC Software Carpentry EPSRC & MRC Centre for Doctoral Training in Regenerative Medicine, University of Manchester EPSRC & MRC Centre for Doctoral Training in Regenerative Medicine, University of Manchester
  • Software Carpentry - McGill University

    2 - 9 Mar 2017

    Software Carpentry - McGill University https://tess.elixir-europe.org/events/software-carpentry-mcgill-university-5da060b9-efa9-433d-98d2-7d491539aa97 Find out more at https://computecanada.github.io/2017-03-02-mcgill/ 2017-03-02 09:00:00 UTC 2017-03-09 00:00:00 UTC Software Carpentry McGill University McGill University
  • Metagenomics data analysis course

    3 - 6 Mar 2017

    Metagenomics data analysis course https://tess.elixir-europe.org/events/metagenomics-data-analysis-course 2017-03-03 09:00:00 UTC 2017-03-06 00:00:00 UTC Espoo Espoo
  • Ensembl Browser Workshop, Cambridge, 3rd March 2017

    03 Mar 2017

    Cambridge, GB

    Ensembl Browser Workshop, Cambridge, 3rd March 2017 https://tess.elixir-europe.org/events/ensembl-browser-workshop-cambridge-3rd-march-2017 Work with the Ensembl Outreach team to get to grips with the Ensembl browser, accessing gene, variation, comparative genomics and regulation data, and mine these data with BioMart. 2017-03-03 09:30:00 UTC 2017-03-03 09:30:00 UTC University of Cambridge, Cambridge, GB University of Cambridge Cambridge GB CB2 3AR
  • 6th Programming for Evolutionary Biology Course

    4 - 20 Mar 2017

    6th Programming for Evolutionary Biology Course https://tess.elixir-europe.org/events/6th-programming-for-evolutionary-biology-course 2017-03-04 09:00:00 UTC 2017-03-20 00:00:00 UTC
  • NERC-MDIBL Environmental Genomics and Metabolomics 2017

    5 - 10 Mar 2017

    Birmingham, UK

    NERC-MDIBL Environmental Genomics and Metabolomics 2017 https://tess.elixir-europe.org/events/a-nerc-funded-short-course-to-guide-genomics-and-metabolomics-research-applied-to-environmental-sciences This NERC funded short course will provide a hands-on approach to guide genomics and metabolomics research applied to the environmental scientists. Participation in the course is open to everyone but priority is given to NERC-funded PhD students and early-career scientists. The course will include ~1.5 days generic environmental omics training and ~3.5 days specialized genomics or metabolomics training. Case studies using multi-omics data will be provided so that you gain practical experience of analyzing and interpreting multi-omics data. Distinguished visiting academics will provide keynote lectures on each day of the course to highlight environmental omics applictions that draw on the expertise of the guest faculty. 2017-03-05 09:00:00 UTC 2017-03-10 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, UK Birmingham Metabolomics Training Centre Birmingham UK B15 2TT
  • Lipidomics: A Workshop about Lipid Function & Analysis

    05 Mar 2017

    Lipidomics: A Workshop about Lipid Function & Analysis https://tess.elixir-europe.org/events/lipidomics-a-workshop-about-lipid-function-analysis 2017-03-05 09:00:00 UTC 2017-03-05 00:00:00 UTC
  • Introduction to MPI

    05 Mar 2017

    Gent, Belgium

    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
  • Parallel filesystems and parallel IO libraries @MdlS

    6 - 7 Mar 2017

    Parallel filesystems and parallel IO libraries @MdlS https://tess.elixir-europe.org/events/parallel-filesystems-and-parallel-io-libraries-mdls The increase in computational power goes hand in hand with an increase in the size of the data to be managed, both on the input and on the output sides. IO can easily become a bottleneck for large scale architectures. The understanding of parallel file system mechanisms and parallel IO concepts enables users to efficiently use existing high level libraires like Netcdf or HDF5. In addition this course will provide an introduction to the well established IO technology in the climate community: XIOS.   Topics: • HDF5 High level IO libraries (3h) • Parallel HDF5 and focus on MPI-IO hints (3h) • Parallel file systems: Lustre (1h30) • XIOS: IO server and online post-processing (4h30)   Instructors: M. Haefele (Maison de la Simulation, CNRS), Thomas Leibovici (TGCC, CEA), Manh-Ha Nguyen (LSCE, CEA) Learning outcomes: After this course, participants should understand the tradeoffs implied by using a parallel file-system, and know how to efficiently use parallel IO libraries. Prerequisites: Knowledge of C or Fortran programming language, parallel programing with MPI https://events.prace-ri.eu/event/569/ 2017-03-06 08:30:00 UTC 2017-03-07 16:00:00 UTC
  • Bioschemas Planning Meeting

    6 - 8 Mar 2017

    Bioschemas Planning Meeting https://tess.elixir-europe.org/events/bioschemas-planning-meeting 2017-03-06 09:00:00 UTC 2017-03-08 00:00:00 UTC EMBL-EBI European Bioinformatics Institute Main Building EMBL-EBI European Bioinformatics Institute Main Building
  • Myths and Realities of Personalised Medicine: the Genetic Revolution

    06 Mar - 10 Apr 2017

    Myths and Realities of Personalised Medicine: the Genetic Revolution https://tess.elixir-europe.org/events/myths-and-realities-of-personalised-medicine-the-genetic-revolution-67b14d5d-eab9-42c1-9533-36bb9a5537a7 Learn about personalised medicine and the impact that our enhanced understanding of genetics has on modern medicine and society. 2017-03-06 09:00:00 UTC 2017-04-10 00:00:00 UTC UNSW Australia
  • Software Carpentry - Winona State University

    6 - 7 Mar 2017

    Software Carpentry - Winona State University https://tess.elixir-europe.org/events/software-carpentry-winona-state-university Find out more at https://ntmoore.github.io/2017-03-06-winona/ 2017-03-06 09:00:00 UTC 2017-03-07 00:00:00 UTC Software Carpentry Winona State University Winona State University
  • PDA17 - Proteomics Data Analysis

    6 - 10 Mar 2017

    Oeiras, Portugal

    PDA17 - Proteomics Data Analysis https://tess.elixir-europe.org/events/proteomics-data-analysis Mass spectrometry based proteomic experiments generate ever larger datasets and, as a consequence, complex data interpretation challenges. In this course, the concepts and methods required to tackle these challenges will be introduced, covering both protein identification and quantification. The core focus will be on shotgun proteomics data. Quantification through isobaric labels (iTRAQ, TMT) and label-free precursor peptide (MS1) ion intensities will also be introduced. The course will rely exclusively on free and user-friendly software, all of which can be directly applied in your lab upon your return from the course. An introduction to available online resources and repositories will also be given. Here you will see how to link the results from proteomic experiments with external data to conduct pathway, gene ontology and interaction analyses. In the course, you will also learn how to submit data to the ProteomeXchange online repositories, and how to browse and reprocess publicly available data from these repositories. The course will provide a solid basis for beginners, but also new perspectives to those already familiar with standard data interpretation procedures in proteomics. Note: this is a highly interactive course. It requires that the participants interact with each other and with the course instructors, in order to reach the learning outcomes in full. 2017-03-06 09:30:00 UTC 2017-03-10 18:30:00 UTC Pedro Fernandes Instituto Gulbenkian de Ciência (IGC), 6, Rua Quinta Grande, Oeiras, Portugal Instituto Gulbenkian de Ciência (IGC), 6, Rua Quinta Grande Oeiras Portugal 2780
  • Hands-on introduction to Perl programming

    6 - 13 Mar 2017

    Leuven, Belgium

    Hands-on introduction to Perl programming https://tess.elixir-europe.org/events/hands-on-introduction-to-perl-programming Learning the basics of Perl programming: different variables, reading files, writing files, regex. Being able to write small scripts to parse text files Using Perl in windows. Day 2 9:30 - 10:30 Recapitulation of learned concepts by correcting the homework 10:30 - 12:30 More Perl programming: pseudo code, conditional statements, routines, best practices 13:00 - 17:00 Exercise session combining all the skills we have gathered. ​​​​ ​​​ 2017-03-06 09:30:00 UTC 2017-03-13 17:00:00 UTC VIB Bioinformatics Core Park Inn by Radisson Leuven, Leuven, Belgium Park Inn by Radisson Leuven Leuven Belgium 3010

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