All Tutorials

  • Thu Feb 7, 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 will 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 preprocessing, 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 Feb 5, 1:00 pm - 3:00 pm
    575
    Walter Library

    Perl is a scripting language that can make writing and maintaining scripts for various UNIX tasks considerably easier than using one of the many shell languages. For example, Perl is very useful for retrieving output from files of completed jobs for use in reports, input to subsequent jobs, and so forth. Perl scripts are often very portable, since Perl is supported on virtually all computer platforms. Perl scripts can be extremely simple or complicated and powerful.


  • Thu Jan 31, 1:00 pm - 4:00 pm
    575
    Walter Library

    Calhoun (the SGI Altix XE 1300 Linux Cluster) has become a new and important component of computing resources at the Supercomputing Institute. This tutorial will help users port serial and parallel (OpenMP and MPI) codes.


    Through hands-on examples, attendees will learn to use the available tools for code porting and debugging. In addition, we will discuss tips on how to profile and improve the performance of an application.


  • Tue Jan 29, 1:30 pm - 4:00 pm
    575
    Walter Library

    This workshop is geared to new users and will give detailed descriptions and hands-on examples of how to navigate the UNIX environment, set up accounts, and submit jobs on the various machines available at MSI.


  • Tue Jan 1, 12:00 am - 12:00 am
  • Thu Dec 6, 1:00 pm - 3:00 pm
    402
    Walter Library

    Analyst software is used to control Applied Biosystems/MDS SCIEX mass spectrometers and other devices, configure the devices attached to instrument workstations, turn instruments, optimize systems, acquire samples, perform qualitative analysis, perform quantitative analysis, and print reports. BioAnalyst software analyzes mass spectrometry data obtained from biological samples. You can perform mass reconstruction, sequence peptides, search databases, display sequence information, perform theoretical enzyme digests of protein sequences, and consult a data dictionary. This tutorial will cover how to use Analyst QS and BioAnalyst to view and analyze mass spectrometry data.


  • Tue Dec 4, 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, surfaces and volume rendering in Amira. This tutorial serves varying interest groups including medicine, biology, chemistry, physics, material sciences, geophysics, astronomy, and engineering.


  • Thu Nov 29, 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 will 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 Nov 27, 1:30 pm - 3:00 pm
    575
    Walter Library

    The CCP4 suite is a large collection of programs used in most of the computations involved in protein x-ray crystallography. The package includes the programs necessary to solve x-ray crystal structures and includes a convenient GUI interface to do most calculations.


    This tutorial will delve into the CCP4 package and cover some of the more advanced features that the introductory course did not cover, using both a lecture and an open discussion format.


    Please contact Can Ergenekan during the semester if there is a particular topic you would like discussed.


  • Thu Nov 15, 1:00 pm - 3:00 pm
    575
    Walter Library

    The Expressionist version Pro4.0 is a comprehensive microarray data analysis system. It provides many analysis methods. In this tutorial we will demonstrate some of these complicated methods including raw data inspection, N-Way ANOVA, volcano plot, Fisher's Exact test for annotation, profile shift analysis and periodogram, Ranking, Maximal Order Preserving set (MOPS), regression, Operon identification, and analysis workflow.


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