converttranscriptfile

converttranscriptfile converts transcript files between formats to enable interoperability of transcriptomic data across bioinformatics tools and pipelines.

Key Features:

• Format Conversion: Transforms transcript data files among multiple formats to satisfy input requirements of downstream analysis tools.
• Galaxy Integration: Executes conversions within the Galaxy@Pasteur instance using Galaxy's execution engine on the Institut Pasteur compute cluster.
• API and Bioblend Communication: Invokes Galaxy workflows and jobs through the Galaxy API or the Bioblend library for programmatic control.

Scientific Applications:

• Genomics: Provides format compatibility for transcriptomic workflows for gene expression analysis and transcriptome processing tools.
• Metagenomics: Ensures transcript file formats are compatible with metagenomic analysis pipelines and tools used for community transcript profiling.
• Phylogenetics: Supplies appropriately formatted transcript data for phylogenetic analyses that require specific input file types.

Methodology:

Performs format conversions by submitting jobs to Galaxy's execution engine on the Institut Pasteur cluster, communicating with Galaxy via its API or the Bioblend library.