The Jalview Java alignment editor

Michele Clamp; James Cuff; Stephen M. Searle; Geoffrey J. Barton

doi:10.1093/bioinformatics/btg430

The Jalview Java alignment editor

Michele Clamp (Lead / Corresponding author), James Cuff, Stephen M. Searle, Geoffrey J. Barton

Computational Biology

Research output: Contribution to journal › Article › peer-review

1262 Citations (Scopus)

Abstract

Multiple sequence alignment remains a crucial method for understanding the function of groups of related nucleic acid and protein sequences. However, it is known that automatic multiple sequence alignments can often be improved by manual editing. Therefore, tools are needed to view and edit multiple sequence alignments. Due to growth in the sequence databases, multiple sequence alignments can often be large and difficult to view efficiently. The Jalview Java alignment editor is presented here, which enables fast viewing and editing of large multiple sequence alignments.

Original language	English
Pages (from-to)	426-427
Number of pages	2
Journal	Bioinformatics
Volume	20
Issue number	3
Early online date	22 Jan 2004
DOIs	https://doi.org/10.1093/bioinformatics/btg430
Publication status	Published - 12 Feb 2004

Keywords

Algorithms
Database management systems
Documentation
Hypermedia
Information storage and retrieval
Sequence alignment
Sequence analysis, DNA
Software
User-computer interface
Word Processing

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10.1093/bioinformatics/btg430

Cite this

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keywords = "Algorithms, Database management systems, Documentation, Hypermedia, Information storage and retrieval, Sequence alignment, Sequence analysis, DNA, Software, User-computer interface, Word Processing",

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AU - Cuff, James

AU - Searle, Stephen M.

AU - Barton, Geoffrey J.

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N2 - Multiple sequence alignment remains a crucial method for understanding the function of groups of related nucleic acid and protein sequences. However, it is known that automatic multiple sequence alignments can often be improved by manual editing. Therefore, tools are needed to view and edit multiple sequence alignments. Due to growth in the sequence databases, multiple sequence alignments can often be large and difficult to view efficiently. The Jalview Java alignment editor is presented here, which enables fast viewing and editing of large multiple sequence alignments.

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KW - Algorithms

KW - Database management systems

KW - Documentation

KW - Hypermedia

KW - Information storage and retrieval

KW - Sequence alignment

KW - Sequence analysis, DNA

KW - Software

KW - User-computer interface

KW - Word Processing

U2 - 10.1093/bioinformatics/btg430

DO - 10.1093/bioinformatics/btg430

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SP - 426

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JO - Bioinformatics

JF - Bioinformatics

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ER -

The Jalview Java alignment editor

Abstract

Keywords

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