All Tutorials

  • Thu Jul 17, 1:00 pm - 3:00 pm
    575
    Walter Library

    Amira is a powerful visualization software package that enables data manipulation, geometry creation, and viewing in a meaningful format. This tutorial will describe the modular approach in Amira to build a visualization framework for different scientific data types. We will introduce concepts in computational geometry, modeling, and surfaces and volume rendering in Amira. This tutorial serves varying interest groups including medicine, biology, chemistry, physics, material sciences, geophysics, astronomy, and engineering.


  • Tue Jul 15, 1:00 pm - 3:00 pm
    402
    Walter Library

    Pymol is a free-for-academic-use modeling software program useful for viewing and creating figures and animation of protein models. This tutorial is designed to help users learn how to navigate and view protein models in Pymol with the goal of making figures and animations for presentations and publications.


  • Thu Jul 10, 10:00 am - 4:00 pm
    575
    Walter Library

    OpenMP is a parallel programming interface for shared-memory architectures and is available on the IBM Regatta, the Blade Center, the SGI Altix and Calhoun. This workshop will help users to use OpenMP programming more productively for high-performance computing by addressing the different aspects of OpenMP, such as parallel and worksharing constructs, data scope attribute clauses, and synchronization constructs. In addition, the new features in the OpenMP II standard will be covered. A hands-on practice will follow the lecture. Examples will enable the users to insert OpenMP directives for different parallel tasks and data scope attribute clauses. Users are also encouraged to bring in their serial application codes. MSI’s user support staff will help you parallelize the code with OpenMP.


  • Tue Jul 8, 1:00 pm - 3:00 pm
    575
    Walter Library

    Trying to discover patterns in data? Looking for techniques for classification and prediction? In this hands-on tutorial, we show you how to accomplish these data mining tasks using Weka. Weka is a freely available software package for knowledge analysis and pattern discovery that contains tools for data pre-processing, classification, regression, clustering, association rules, and visualization.


    In this tutorial, we go through the basic steps involved in loading data into Weka, exploring and filtering data, and applying Weka data mining tools. The main focus is on techniques for classification, such as decision trees or neural nets, but we will also explore the other capabilities of Weka (clustering, association analysis, etc.) as time allows.


  • Tue Jul 1, 1:00 pm - 3:00 pm
    575
    Walter Library

    Gaussian is a program that can be used to calculate a variety of chemical properties. Gaussian is primarily used for carrying out electronic structure calculations. This hands-on tutorial will give an overview of the program capabilities, a detailed description of how to run the program at MSI, and tips on how to run jobs efficiently.


  • Mon Jun 30, 10:00 am - 4:00 pm
    575
    Walter Library

    This one-day workflow training event provides an introduction to the Inforsense workflow platform. It will cover the basic concepts of workflows, how to create a workflow, and how to deploy a workflow to the Web portal. It will also demonstrate some specific CWEB workflows that researchers have found useful here at the University of Minnesota. The tutorial will emphasize the implementation and integration of data workflow technology to accelerate the development and deployment of customized bioinformatics applications with re-usable software components.


    A workflow platform is a program that allows a user to see and work with a high-level representation of an analytical process. Workflows have been used in the business world, and are gaining popularity in the realm of bioinformatics.


  • Thu Jun 26, 1:00 pm - 3:00 pm
    575
    Walter Library

    Microscopic images are mostly collected as stacks (3D) and often with time lapses (the fourth dimension). Huygens is a comprehensive deconvolution package for 3D and 4D microscopy. This tutorial will introduce users to image processing algorithms for wide-field and confocal microscopes. It will demonstrate practical applications of Huygens in deconvolution, resolution, and noise reduction for restoring images. Users will also be introduced to batch utilities in Huygens Scripting to process large numbers of image datasets automatically.


  • Wed Jun 25, 1:00 pm - 3:00 pm
    402
    Walter Library

    This session will show you how to perform parallel computing in MATLAB using either your desktop machine or a computer cluster. You will learn how to utilize the full capabilities of your multicore machine through the new parallelism capabilities of MATLAB 7.6.0 (R2008a) and Parallel Computing Toolbox 3.3. We will also introduce the use of our parallel computing products on a computer cluster to speed up your algorithms and handle larger data sets.


    * Applications of parallel computing

    * Implicit multi-threaded computations

    * Interactive task parallel applications

    * Interactive data parallel applications

    * Interactive applications to batch applications

    * Tips/Tricks on parallel coding in MATLAB

    * Operational requirements


  • Tue Jun 24, 1:00 pm - 4:00 pm
    575
    Walter Library

    MATLAB is an integrated technical computing environment that combines numeric computation, graphics and visualization, and a high-level programming language. MATLAB includes hundreds of functions for data analysis and visualization, numeric and symbolic computation engineering, and scientific graphics modeling and simulation.


    This tutorial consists of two parts:


    Part one: A 90-minute lecture describing the use of computation and visualization functions and tools.


    Part two: An optional one-hour, hands-on session focusing on the use of these functions for your application.


  • Tue Jun 17, 1:00 pm - 3:00 pm
    575
    Walter Library

    This is a hands-on workshop introducing relational databases and structural query language (SQL). Attendees will practice creating and querying databases in an Oracle environment. Topics include a brief overview of relational database design concepts and principals, and conceptual data models and constraints.


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