EMBOSS Developer's Guide: Bioinformatics Programming

Jon C. Ison; Peter M. Rice; Alan J. Bleasby

doi:10.1017/CBO9781139151405

EMBOSS Developer's Guide

Bioinformatics Programming

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Rahman, A. Góngora-Castillo, E. Bowman, M. J. Childs, K. L. Gent, D. H. Martin, F. N. and Quesada-Ocampo, L. M. 2019. Genome Sequencing and Transcriptome Analysis of the Hop Downy Mildew PathogenPseudoperonospora humuliReveal Species-Specific Genes for Molecular Detection. Phytopathology®, Vol. 109, Issue. 8, p. 1354.

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Stahr, M. N. Parada-Rojas, C. Childs, K. L. Alfenas, R. F. Fernandes, F. M. Avila, K. and Quesada-Ocampo, L. M. 2024. Long-Read Sequencing Genome Assembly of Ceratocystis fimbriata Enables Development of Molecular Diagnostics for Sweetpotato Black Rot. Phytopathology®, Vol. 114, Issue. 6, p. 1411.

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Jon C. Ison, European Bioinformatics Institute, Hinxton, Peter M. Rice, European Bioinformatics Institute, Hinxton, Alan J. Bleasby, European Bioinformatics Institute, Hinxton

Publisher:: Cambridge University Press
Online publication date:: December 2011
Print publication year:: 2011
Online ISBN:: 9781139151405
DOI:: https://doi.org/10.1017/CBO9781139151405

Subjects:: Genomics, Bioinformatics and Systems Biology, Life Sciences, Computer Science, Computational Biology and Bioinformatics

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The European Molecular Biology Open Software Suite (EMBOSS) is a high quality, well documented package of open source software tools for molecular biology. EMBOSS includes extensive and extensible C programming libraries, providing a powerful and robust toolkit for developing new bioinformatics tools from scratch.The EMBOSS Developer's Guide is the official and definitive guide to developing software under EMBOSS. It includes comprehensive reference information and guidelines, including step-by-step instructions and real-world code examples:Learn how to write fully-featured tools guided by the people who developed EMBOSSStep-by-step guide to writing EMBOSS applications, illustrated with functional, deployed codeACD file development - learn how to customise existing tools without coding, or design and write entirely new application interfacesEMBOSS API programming guidelines - quickly master application developmentWrapping and porting applications under EMBOSS - learn how to incorporate third-party tools

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EMBOSS Developer's Guide

Bioinformatics Programming

This Book has been cited by the following publications. This list is generated based on data provided by Crossref.

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Contents

Frontmatter
pp i-iv

Contents
pp v-xix

Acknowledgements
pp xx-xxii

Preface
pp xxiii-xxv

Conventions
pp xxvi-xxvii

Welcome to the EMBOSS Developer’s Guide
pp xxviii-xxx

1 - Getting started
pp 1-22

2 - Your first EMBOSS application
pp 23-50

3 - Software development under EMBOSS
pp 51-80

4 - ACD file development
pp 81-144

5 - C programming
pp 145-184

6 - Programming with AJAX
pp 185-413

7 - Quality assurance
pp 414-423

8 - Application documentation standards
pp 424-432

9 - A complete application: seqret
pp 433-449

10 - Incorporating third-party applications
pp 450-483

Appendix A - ACD syntax reference
pp 484-567

Appendix B - C programming libraries
pp 568-573

Appendix C - C coding standards
pp 574-596

Appendix D - Code documentation standards
pp 597-611

Appendix E - Resources
pp 612-613

Index
pp 614-622

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Bioinformatics Programming

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