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SeqAn Manual — SeqAn master documentation

Welcome to the manual pages for the SeqAn library! SeqAn is a C template library for the analysis of biological sequences. As such, it contains algorithms and data structures for. String representation and their manipluation,. Online and indexed string search,. Efficient I/O of bioinformatics file formats,. Sequence alignments, and. Many, many more. Which is the standard template library defined by the ISO C committee. The rest will be discussed in the subsequent tutorials step by step. Please note, that...

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Welcome to the manual pages for the SeqAn library! SeqAn is a C template library for the analysis of biological sequences. As such, it contains algorithms and data structures for. String representation and their manipluation,. Online and indexed string search,. Efficient I/O of bioinformatics file formats,. Sequence alignments, and. Many, many more. Which is the standard template library defined by the ISO C committee. The rest will be discussed in the subsequent tutorials step by step. Please note, that...

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SeqAn Manual — SeqAn master documentation | seqan.readthedocs.io Reviews

https://seqan.readthedocs.io

Welcome to the manual pages for the SeqAn library! SeqAn is a C template library for the analysis of biological sequences. As such, it contains algorithms and data structures for. String representation and their manipluation,. Online and indexed string search,. Efficient I/O of bioinformatics file formats,. Sequence alignments, and. Many, many more. Which is the standard template library defined by the ISO C committee. The rest will be discussed in the subsequent tutorials step by step. Please note, that...

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seqan.readthedocs.io

1

SeqAn Manual — SeqAn 2.0.2 documentation

http://seqan.readthedocs.io/en/seqan-v2.0.2

This is the manual of the SeqAn library. SeqAn is the C template library for the analysis of biological sequences. It contains algorithms and data structures for. String representation and their manipluation,. Online and indexed string search,. Efficient I/O of bioinformatics file formats,. Sequence alignment, and. Each tutorial takes 30 to 60 minutes of your time for learning how to use SeqAn. Jump right into using SeqAn using our tutorials! These pages contain definitions of various terms.

2

References — SeqAn master documentation

http://seqan.readthedocs.io/en/master/zreferences.html

Mohamed Ibrahim Abouelhoda, Stefan Kurtz, and Enno Ohlebusch. Replacing suffix trees with enhanced suffix arrays. Journal of Discrete Algorithms. 2(1):53 86, 2004. doi:10.1016/S1570-8667(03)00065-0. Alfred V Aho and Margaret J Corasick. Efficient string matching: an aid to bibliographic search. Communications of the ACM. 18(6):333 340, 1975. doi:10.1145/360825.360855. Stephen F Altschul, Warren Gish, Webb Miller, Eugene W Myers, and David J Lipman. Basic local alignment search tool. Paolo Ferragina and G...

3

Alignment — SeqAn master documentation

http://seqan.readthedocs.io/en/master/Tutorial/DataStructures/Alignment/index.html

Alignment Algorithms ( e.g. Pairwise. Are one of the core algorithms in SeqAn. In this section you can learn how SeqAn represents alignments as C Objects and how you could use those data structures for your own alignment algorithm. Furthermore, you can learn which different kinds of Scoring Schemes. Provided by Read the Docs. On Read the Docs. Free document hosting provided by Read the Docs.

4

Data Structures — SeqAn master documentation

http://seqan.readthedocs.io/en/master/Tutorial/DataStructures/index.html

SeqAn has numerous data structures that are helpful for analyzing biological sequences. Those range from simple containers for strings that can be saved in different ways, to collection of strings or compressed strings. Another strong side of SeqAn are its generic string indices. You can think suffix tree but the implementations range from an enhanced suffix array to (bidirectional) FM-indices. In this section you find tutorials addressing the most common of SeqAn’s data structures. Will introduce you to...

5

Team Guide — SeqAn master documentation

http://seqan.readthedocs.io/en/master/Infrastructure/Manage/index.html

Library and App releases. This guide is aimed at all people who contribute to SeqAn on a regular basis, and especially those that are responsible for certain parts of it. Downstream package maintainers should also read some of the articles, especially the Releases page. It includes a description of the repository structure, detailed conventions and instructions, as well as documentation of the nightly build system. Library and App releases. Provided by Read the Docs. On Read the Docs.

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SeqAn Manual — SeqAn master documentation

Welcome to the manual pages for the SeqAn library! SeqAn is a C template library for the analysis of biological sequences. As such, it contains algorithms and data structures for. String representation and their manipluation,. Online and indexed string search,. Efficient I/O of bioinformatics file formats,. Sequence alignments, and. Many, many more. Which is the standard template library defined by the ISO C committee. The rest will be discussed in the subsequent tutorials step by step. Please note, that...

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