2013

Computational Biology

A Practical Introduction to BioData Processing and Analysis with Linux, MySQL, and R

Authors:

ISBN: 978-3-642-34748-1 (Print) 978-3-642-34749-8 (Online)

Table of contents (21 chapters)

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  1. Front Matter

    Pages i-xxix

  2. Whetting Your Appetite

    1. Front Matter

      Pages 1-1

    2. No Access

      Book Chapter

      Pages 3-9

      Introduction

    3. No Access

      Book Chapter

      Pages 11-17

      Content of This Book

  3. Computer & Operating Systems

    1. Front Matter

      Pages 19-19

    2. No Access

      Book Chapter

      Pages 21-35

      Unix/Linux

  4. Working with Linux

    1. Front Matter

      Pages 37-37

    2. No Access

      Book Chapter

      Pages 39-51

      The First Touch

    3. No Access

      Book Chapter

      Pages 53-70

      Working with Files

    4. No Access

      Book Chapter

      Pages 71-75

      Remote Connections

    5. No Access

      Book Chapter

      Pages 77-96

      Playing with Text and Data Files

    6. No Access

      Book Chapter

      Pages 97-114

      Using the Shell

    7. No Access

      Book Chapter

      Pages 115-123

      Installing BLAST and ClustalW

    8. No Access

      Book Chapter

      Pages 125-155

      Shell Programming

    9. No Access

      Book Chapter

      Pages 157-174

      Regular Expressions

    10. No Access

      Book Chapter

      Pages 175-193

      Sed

  5. Programming

    1. Front Matter

      Pages 195-195

    2. No Access

      Book Chapter

      Pages 197-254

      AWK

    3. No Access

      Book Chapter

      Pages 255-290

      Perl

    4. No Access

      Book Chapter

      Pages 291-292

      Other Programming Languages

  6. Advanced Data Analysis

    1. Front Matter

      Pages 293-293

    2. No Access

      Book Chapter

      Pages 295-315

      Relational Databases with MySQL

    3. No Access

      Book Chapter

      Pages 317-341

      The Statistics Suite R

  7. Worked Examples

    1. Front Matter

      Pages 343-343

    2. No Access

      Book Chapter

      Pages 345-373

      Genomic Analysis of the Pathogenicity Factors from E. coli Strain O157:H7 and EHEC Strain O104:H4

    3. No Access

      Book Chapter

      Pages 375-391

      Limits of BLAST and Homology Modeling

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      Book Chapter

      Pages 393-407

      Virtual Sequencing of pUC18c

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