genbank2gff3

genbank2gff3 converts sequence annotations from GenBank, EMBL, and UniProt formats into GFF3 to standardize genomic feature representations for downstream computational analyses.

Key Features:

• Format conversion: Converts sequence annotation files from GenBank, EMBL, and UniProt into GFF3 (General Feature Format version 3).
• Galaxy integration: Compatible with the Galaxy platform and Galaxy@Pasteur for integration into Galaxy-based workflows.
• API invocation: Can be invoked through the Galaxy API or via the Bioblend library for programmatic execution.
• Cluster execution: Runs using the Galaxy@Pasteur execution engine on the Institut Pasteur cluster.

Scientific Applications:

• Genomic research: Provides standardized GFF3 annotations for comparative genomics, gene prediction, and functional annotation studies.
• Metagenomics and phylogenetics: Supplies GFF3-formatted annotations to support metagenomic data analysis and phylogenetic investigations.
• Workflow integration: Enables incorporation of converted annotations into Galaxy-based bioinformatics pipelines for reproducible computational analyses.

Methodology:

Operates within the Galaxy framework and can be invoked via the Galaxy API or the Bioblend library, running on the Galaxy@Pasteur execution engine on the Institut Pasteur cluster.