cblaster: a remote search tool for rapid identification and visualization of homologous gene clusters

Cameron Gilchrist, Thomas Booth, Bram van Wersch, Liana van Grieken, Marnix H. Medema, Yit-Heng Chooi

Research output: Contribution to journalArticlepeer-review

Abstract

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.
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.
Original languageEnglish
Article numbervbab016
JournalBioinformatics Advances
Volume1
Issue number1
DOIs
Publication statusPublished - 5 Aug 2021

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