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  • © 2021

Multiple Sequence Alignment

Methods and Protocols

Editors:

  1. Kazutaka Katoh

    1. Research Institute for Microbial Disease, Osaka University, Osaka, Japan

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  • Includes cutting-edge methods and protocols

  • Provides step-by-step detail essential for reproducible results

  • Contains keynotes and implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 2231)

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  • ISBN: 978-1-0716-1036-7
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Table of contents (18 protocols)

  1. Front Matter

    Pages i-xiii
    PDF

  2. Basic Tools for Computing MSAa

    1. Front Matter

      Pages 1-1
      PDF

    2. The Clustal Omega Multiple Alignment Package

      • Fabian Sievers, Desmond G. Higgins
      Pages 3-16

  3. Tools for Specific MSA Problems

    1. Front Matter

      Pages 49-49
      PDF

    2. Aligning Protein-Coding Nucleotide Sequences with MACSE

      • Vincent Ranwez, Nathalie Chantret, Frédéric Delsuc
      Pages 51-70

    4. Multiple Sequence Alignment Computation Using the T-Coffee Regressive Algorithm Implementation

      • Edgar Garriga, Paolo Di Tommaso, Cedrik Magis, Ionas Erb, Leila Mansouri, Athanasios Baltzis et al.
      Pages 89-97

    7. lamassemble: Multiple Alignment and Consensus Sequence of Long Reads

      • Martin C. Frith, Satomi Mitsuhashi, Kazutaka Katoh
      Pages 135-145

    8. Automated Removal of Non-homologous Sequence Stretches with PREQUAL

      • Iker Irisarri, Fabien Burki, Simon Whelan
      Pages 147-162

    9. Analysis of Protein Intermolecular Interactions with MAFFT-DASH

      • John Rozewicki, Songling Li, Kazutaka Katoh, Daron M. Standley
      Pages 163-177

  4. Visualization

    1. Front Matter

      Pages 201-201
      PDF

    2. Alignment of Biological Sequences with Jalview

      • James B. Procter, G. Mungo Carstairs, Ben Soares, Kira Mourão, T. Charles Ofoegbu, Daniel Barton et al.
      Pages 203-224Open Access

    3. Evolutionary Sequence Analysis and Visualization with Wasabi

      • Andres Veidenberg, Ari Löytynoja
      Pages 225-240
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About this book

Chapter “Alignment of Biological Sequences with Jalview” is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.
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Keywords

  • TCoffee
  • Promals
  • QuickProbs
  • PRANK
  • GBench
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Editors and Affiliations

  • Research Institute for Microbial Disease, Osaka University, Osaka, Japan

    Kazutaka Katoh

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Bibliographic Information

  • Book Title: Multiple Sequence Alignment

  • Book Subtitle: Methods and Protocols

  • Editors: Kazutaka Katoh

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-1036-7

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC, part of Springer Nature 2021

  • Hardcover ISBN: 978-1-0716-1035-0Published: 09 December 2020

  • Softcover ISBN: 978-1-0716-1038-1Published: 09 December 2020

  • eBook ISBN: 978-1-0716-1036-7Published: 08 December 2020

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XIII, 321

  • Number of Illustrations: 22 b/w illustrations, 90 illustrations in colour

  • Topics: Bioinformatics

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Access via your institution
eBook USD 109.00
Price excludes VAT (USA)
  • ISBN: 978-1-0716-1036-7
  • Instant PDF download
  • Readable on all devices
  • Own it forever
  • Exclusive offer for individuals only
  • Tax calculation will be finalised during checkout
Softcover Book USD 149.99
Price excludes VAT (USA)
Hardcover Book USD 219.99
Price excludes VAT (USA)
Learn about institutional subscriptions