All Tutorials

  • Mon Oct 3, 1:00 pm - 3:00 pm
    138
    Cargill Building

    GCG Wisconsin Package, DS Gene, and MacVector are bioinformatics software from Accelyrs for use on UNIX, Windows, and Macintosh platforms. They can be used for sequence analysis, restriction enzyme mapping, primer selection, etc.


    This tutorial will introduce each of these packages and will cover the following topics:


    1. Overview


    2. Data and database files that the programs access


    3. How to get started


    4. Programs by function


  • Thu Sep 29, 1:00 pm - 2:00 pm
    402
    Walter Library

    A Makefile provides a convenient and efficient way to build projects from source files. It is the de facto standard in the world of UNIX developers. The MAKE program allows you to manage the dependencies between various files composing the project, saving a very significant amount of time during code development by eliminating unnecessary recompiles.


    During this tutorial, the basics of MAKE will be presented for both simple and complex projects. A popular MAKE extension, GNU MAKE, will also be discussed.


  • Tue Sep 27, 1:00 pm - 3:00 pm
    402
    Walter Library

    Statistics are very important to many scientific research projects. R and S-PLUS are powerful statistical computing languages and environments available at the Supercomputing Institute. Bell Laboratories developed the S language and environment in the 1980s for data analysis. S was further developed into a commercial product called S-PLUS. R is a dialect of the S language.


    This tutorial will demonstrate how to read and manipulate data in the R and S-PLUS environments. In addition, attendees will learn how to perform basic statistical analysis in R and how to produce graphics with the software packages.


  • Thu Sep 22, 1:00 pm - 3:00 pm
    585
    Walter Library

    Tecplot is a software package for 2-D or 3-D visualization of technical data, obtained from analysis, experiments, and simulations. The objective of this tutorial is to teach users how to use Tecplot, especially its advanced features. This tutorial consists of two parts:


    1. A lecture to describe the capabilities of Tecplot


    2. Hands-on practice focusing on the use of this tool for your practical applications


    Users are encouraged to contact Seema (seemaj@msi.umn.edu) to format their data to make the workshop more effective. Data sets will be available to use if you want to learn Tecplot, but do not have a dataset ready.


  • Tue Sep 20, 1:00 pm - 3:00 pm
    402
    Walter Library

    CHARMM (Chemistry at HARvard Macromolecular Mechanics) is an academically and commercially distributed software program for molecular dynamics (MD) simulations. It is used extensively to simulate the dynamic behavior of molecular and biomolecular systems as well as free energy calculations.


    This tutorial will cover the basic fundamental theory of MD simulation and how MD simulation can be used to study the conformational dynamics of a biomolecular system. This tutorial will also show you how to write command files for doing a simple MD simulation and how to carry out a typical analysis in CHARMM.


  • Thu Sep 15, 1:00 pm - 3:00 pm
    402
    Walter Library

    Several computational chemistry packages and platforms are available to researchers at MSI. This tutorial will explain why certain combinations of program, method, and platform work better than others. We will also discuss how calculations can be run as fast as possible. This tutorial will focus on calculations using wavefunction-based and DFT-based methods.


  • Tue Sep 13, 1:00 pm - 3:00 pm
    402
    Walter Library

    The majority of the most powerful scientific research computers in the world use Linux or UNIX for their operating systems. Learning the basics of Linux/UNIX is the first step to effectively utilizing these powerful resources for your research.


    This tutorial is designed to introduce you to the Linux/UNIX operating system. We will discuss some of the most commonly used commands, some helpful shortcuts, and some of the key elements of using Linux/UNIX for your research efforts.


  • Thu Sep 1, 1:00 pm - 3:00 pm
    402
    Walter Library

    Genomics has changed the face of life sciences since the first draft of the human genome sequence was released in 2000. Computational tools play an important role in this change.

    The Supercomputing Institute has some of the most powerful computational genomics software tools available. These tools allow for genomics data acquisition, quality assessment, normalization, statistical analysis, functional annotation, pathway, interaction network, structural genomics, and data management.


    This tutorial will overview around 15 of the Institute/.s microarray and pathway genomics software tools and will guide users in accessing these resources.


  • Tue Aug 16, 1:00 pm - 3:00 pm
    402
    Walter Library

    The QuantumCube is a computing resource at the Institute made by Parallel Quantum Solutions. The first part of this tutorial will be an overview of the hardware and will cover how to compile and run jobs. The second part will cover the PQS Ab Initio quantum mechanics package, which is installed on this machine.


  • Thu Aug 4, 1:00 pm - 3:00 pm
    585
    Walter Library

    This is a hands-on workshop for relational database and structural query language (SQL). Attendees will have the opportunity to practice creating and querying a database in the Oracle environment. Topics will include a brief overview of relational database design concepts and principals, conceptual data model and constraints, and an introduction to structural query language (SQL).


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