Circleator is a Perl application that generates circular figures of genome-associated data. It leverages BioPerl to support standard annotation and sequence file formats and produces publication-quality SVG output. It is designed to be both flexible and easy to use.
It includes a library of circular track types and predefined configuration files for common use-cases, including:
- visualizing gene annotation and DNA sequence data from a GenBank flat file,
- displaying patterns of gene conservation in related microbial strains,
- showing SNPs and indels relative to a reference genome and gene set, and
- viewing RNA-Seq plots.
Availability – Circleator is freely available under the Artistic License 2.0 from http://jonathancrabtree.github.io/Circleator/ and is integrated with the CloVR cloud-based sequence analysis VM, which can be downloaded from http://clovr.org or run on Amazon EC2.
Contact: jcrabtree@som.umaryland.edu
[box type=”shadow” align=”alignleft” ]Crabtree J, Agrawal S, Mahurkar A, Myers GS, Rasko DA, White O. (2014) Circleator: Flexible Circular Visualization of Genome-Associated Data with BioPerl and SVG. Bioinformatics [Epub ahead of print]. [abstract][/fusion_text][/fusion_builder_column_inner][/fusion_builder_row_inner][/fusion_builder_column]Related Posts
Circleator is a Perl application that generates circular figures of genome-associated data. It leverages BioPerl to support standard annotation and sequence file formats and produces publication-quality SVG output. It is designed to be both flexible and easy to use.
It includes a library of circular track types and predefined configuration files for common use-cases, including:
- visualizing gene annotation and DNA sequence data from a GenBank flat file,
- displaying patterns of gene conservation in related microbial strains,
- showing SNPs and indels relative to a reference genome and gene set, and
- viewing RNA-Seq plots.
Availability – Circleator is freely available under the Artistic License 2.0 from http://jonathancrabtree.github.io/Circleator/ and is integrated with the CloVR cloud-based sequence analysis VM, which can be downloaded from http://clovr.org or run on Amazon EC2.
Contact: jcrabtree@som.umaryland.edu
[box type=”shadow” align=”alignleft” ]Crabtree J, Agrawal S, Mahurkar A, Myers GS, Rasko DA, White O. (2014) Circleator: Flexible Circular Visualization of Genome-Associated Data with BioPerl and SVG. Bioinformatics [Epub ahead of print]. [abstract][/fusion_text][/fusion_builder_column_inner][/fusion_builder_row_inner][/fusion_builder_column]Related Posts
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