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

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

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

[1] Kim Rutherford,et al. WebACT - an online companion for the Artemis Comparison Tool , 2005, Bioinform..

[2] Matthew Berriman,et al. ACT: the Artemis comparison tool , 2005, Bioinform..

[3] F. Blattner,et al. Mauve: multiple alignment of conserved genomic sequence with rearrangements. , 2004, Genome research.

[4] Trinad Chakraborty,et al. GenomeViz: visualizing microbial genomes , 2004, BMC Bioinformatics.

[5] D. Ussery,et al. Three views of microbial genomes. , 1999, Research in microbiology.

[6] Webb Miller,et al. EnteriX 2003: visualization tools for genome alignments of Enterobacteriaceae , 2003, Nucleic Acids Res..

[7] Jos Boekhorst,et al. Visualization for genomics: the Microbial Genome Viewer , 2004, Bioinform..

[8] A. Fraser,et al. Genome sequence of the enterobacterial phytopathogen Erwinia carotovora subsp. atroseptica and characterization of virulence factors. , 2004, Proceedings of the National Academy of Sciences of the United States of America.