DNAPlotter: circular and linear interactive genome visualization

被引：668

作者：

Carver, Tim ^{[1
]}

Thomson, Nick ^{[1
]}

Bleasby, Alan ^{[2
]}

Berriman, Matthew ^{[1
]}

Parkhill, Julian ^{[1
]}

机构：

[1] Wellcome Trust Sanger Inst, Cambridge CB10 1SA, England

[2] European Bioinformat Inst, Cambridge CB10 1SD, England

来源：

BIOINFORMATICS | 2009年 / 25卷 / 01期

基金：

英国惠康基金;

关键词：

D O I：

10.1093/bioinformatics/btn578

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

DNAPlotter is an interactive Java application for generating circular and linear representations of genomes. Making use of the Artemis libraries to provide a user-friendly method of loading in sequence files (EMBL, GenBank, GFF) as well as data from relational databases, it filters features of interest to display on separate user-definable tracks. It can be used to produce publication quality images for papers or web pages.

引用

页码：119 / 120

页数：2

共 8 条

[1]

Berriman Matt, 2003, Briefings in Bioinformatics, V4, P124, DOI 10.1093/bib/4.2.124

[2] Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database [J].

Carver, Tim ;

Berriman, Matthew ;

Tivey, Adrian ;

Patel, Chinmay ;

Bohme, Ulrike ;

Barrell, Barclay G. ;

Parkhill, Julian ;

Rajandream, Marie-Adele .

BIOINFORMATICS, 2008, 24 (23) :2672-2676

[3] Genome visualization made fast and simple [J].

Gibson, R ;

Smith, DR .

BIOINFORMATICS, 2003, 19 (11) :1449-1450

[4] Visualization for genomics: The microbial genome viewer [J].

Kerkhoven, R ;

van Enckevort, FHJ ;

Boekhorst, J ;

Molenaar, D ;

Siezen, RJ .

BIOINFORMATICS, 2004, 20 (11) :1812-1814

[5] GenomeDiagram: a python']python package for the visualization of large-scale genomic data [J].

Pritchard, L ;

White, JA ;

Birch, PRJ ;

Toth, IK .

BIOINFORMATICS, 2006, 22 (05) :616-617

[6] Artemis: sequence visualization and annotation [J].

Rutherford, K ;

Parkhill, J ;

Crook, J ;

Horsnell, T ;

Rice, P ;

Rajandream, MA ;

Barrell, B .

BIOINFORMATICS, 2000, 16 (10) :944-945

[7] GenoMap, a circular genome data viewer [J].

Sato, N ;

Ehira, S .

BIOINFORMATICS, 2003, 19 (12) :1583-1584

[8] Circular genome visualization and exploration using CGView [J].

Stothard, P ;

Wishart, DS .

BIOINFORMATICS, 2005, 21 (04) :537-539

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