GenomeDiagram: a python package for the visualization of large-scale genomic data

L Pritchard; JA White; PRJ Birch; IK Toth

doi:10.1093/bioinformatics/btk021

GenomeDiagram: a python package for the visualization of large-scale genomic data

L Pritchard^*, JA White, PRJ Birch, IK Toth

^*Corresponding author for this work

University of St Andrews

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

69 Citations (Scopus)

Abstract

We present GenomeDiagram, a flexible, open-source Python module for the visualization of large-scale genomic, comparative genomic and other data with reference to a single chromosome or other biological sequence. GenomeDiagram may be used to generate publication-quality vector graphics, rastered images and in-line streamed graphics for webpages. The package integrates with datatypes from the BioPython project, and is available for Windows, Linux and Mac OS X systems.

Availability: GenomeDiagram is freely available as source code (under GNU Public License) at http://bioinf.scri.ac.uk/lp/programs.html, and requires Python 2.3 or higher, and recent versions of the ReportLab and BioPython packages.

Contact: [email protected]

Supplementary Information A user manual, example code and images are available at http://bioinf.scri.ac.uk/lp/programs.html.

Original language	English
Pages (from-to)	616-617
Number of pages	2
Journal	Bioinformatics
Volume	22
Issue number	5
DOIs	https://doi.org/10.1093/bioinformatics/btk021
Publication status	Published - 1 Mar 2006

Keywords

ARTEMIS COMPARISON TOOL
MICROBIAL GENOMES
SEQUENCE

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title = "GenomeDiagram: a python package for the visualization of large-scale genomic data",

abstract = "We present GenomeDiagram, a flexible, open-source Python module for the visualization of large-scale genomic, comparative genomic and other data with reference to a single chromosome or other biological sequence. GenomeDiagram may be used to generate publication-quality vector graphics, rastered images and in-line streamed graphics for webpages. The package integrates with datatypes from the BioPython project, and is available for Windows, Linux and Mac OS X systems.Availability: GenomeDiagram is freely available as source code (under GNU Public License) at http://bioinf.scri.ac.uk/lp/programs.html, and requires Python 2.3 or higher, and recent versions of the ReportLab and BioPython packages.Contact: [email protected] Information A user manual, example code and images are available at http://bioinf.scri.ac.uk/lp/programs.html.",

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AU - White, JA

AU - Birch, PRJ

AU - Toth, IK

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AB - We present GenomeDiagram, a flexible, open-source Python module for the visualization of large-scale genomic, comparative genomic and other data with reference to a single chromosome or other biological sequence. GenomeDiagram may be used to generate publication-quality vector graphics, rastered images and in-line streamed graphics for webpages. The package integrates with datatypes from the BioPython project, and is available for Windows, Linux and Mac OS X systems.Availability: GenomeDiagram is freely available as source code (under GNU Public License) at http://bioinf.scri.ac.uk/lp/programs.html, and requires Python 2.3 or higher, and recent versions of the ReportLab and BioPython packages.Contact: [email protected] Information A user manual, example code and images are available at http://bioinf.scri.ac.uk/lp/programs.html.

KW - ARTEMIS COMPARISON TOOL

KW - MICROBIAL GENOMES

KW - SEQUENCE

U2 - 10.1093/bioinformatics/btk021

DO - 10.1093/bioinformatics/btk021

M3 - Article

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JO - Bioinformatics

JF - Bioinformatics

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ER -

GenomeDiagram: a python package for the visualization of large-scale genomic data

Abstract

Keywords

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