BugBuilder

BugBuilder automates assembly and annotation of microbial genomes from high-throughput sequencing data for downstream genomic analysis.

Key Features:

• Automated assembly and annotation: Performs genome assembly and structural/functional annotation of microbial genomes from high-throughput sequencing reads.
• Configurable assemblers and scaffolders: Supports runtime selection and configuration of command-line assembly and scaffolding tools.
• Sequence type support: Accepts all common sequence types utilized in microbial genome assembly.
• Database- and finishing-ready outputs: Produces outputs suitable for database submissions and downstream finishing processes.
• Cluster processing: Operates in cluster environments to process multiple genomes in high-throughput workflows.
• Implementation: Implemented in Perl.
• License: Distributed under the Artistic License.

Scientific Applications:

• Microbial genome assembly: Assembly of bacterial and other microbial genomes from high-throughput sequencing data.
• Genome annotation: Structural and functional annotation of assembled microbial genomes for downstream analysis.
• Submission preparation: Generation of outputs formatted for database submission and subsequent finishing workflows.
• High-throughput genomic processing: Batch processing of multiple microbial genomes in cluster environments for large-scale studies.

Methodology:

Automated steps explicitly include assembly, scaffolding and annotation of microbial genomes from high-throughput sequencing data with runtime-selectable command-line assemblers and scaffolders; the software is implemented in Perl and supports cluster execution and multiple sequence types.