Dataset Information
Cblaster: a remote search tool for rapid identification and visualization of homologous gene clusters.
Ontology highlight
ABSTRACT: Motivation
Genes involved in coordinated biological pathways, including metabolism, drug resistance and virulence, are often collocalized as gene clusters. Identifying homologous gene clusters aids in the study of their function and evolution, however, existing tools are limited to searching local sequence databases. Tools for remotely searching public databases are necessary to keep pace with the rapid growth of online genomic data.Results
Here, we present cblaster, a Python-based tool to rapidly detect collocated genes in local and remote databases. cblaster is easy to use, offering both a command line and a user-friendly graphical user interface. It generates outputs that enable intuitive visualizations of large datasets and can be readily incorporated into larger bioinformatic pipelines. cblaster is a significant update to the comparative genomics toolbox.Availability and implementation
cblaster source code and documentation is freely available from GitHub under the MIT license (github.com/gamcil/cblaster).Supplementary information
Supplementary data are available at Bioinformatics Advances online.
SUBMITTER: Gilchrist CLM
PROVIDER: S-EPMC9710679 | biostudies-literature | 2021
REPOSITORIES: biostudies-literature
Publications
cblaster: a remote search tool for rapid identification and visualization of homologous gene clusters.
Bioinformatics advances 20210805 1
<h4>Motivation</h4>Genes involved in coordinated biological pathways, including metabolism, drug resistance and virulence, are often collocalized as gene clusters. Identifying homologous gene clusters aids in the study of their function and evolution, however, existing tools are limited to searching local sequence databases. Tools for remotely searching public databases are necessary to keep pace with the rapid growth of online genomic data.<h4>Results</h4>Here, we present cblaster, a Python-bas ...[more]