selectbesthit

selectbesthit selects the best alignment hit for each query from BLAST tabular output to support downstream sequence-analysis and genomics workflows.

Key Features:

• Efficient Hit Selection: Automates identification of the single best alignment hit per query using predefined criteria.
• BLAST tabular input support: Parses BLAST tabular output files to extract alignment records for selection.
• Integration with Galaxy Platform: Operates within the Galaxy framework, including Galaxy@Pasteur, to be incorporated into bioinformatics workflows.
• Execution via Galaxy API or Bioblend Library: Communicates with Galaxy using its API or the Bioblend library to execute workflows on the Institut Pasteur cluster.

Scientific Applications:

• Metagenomic Analysis: Selects representative hits for query sequences in metagenomic workflows such as MetaGenSense.
• Phylogenetic Studies: Provides single best alignments per query to support sequence selection for phylogenetic reconstruction.
• General Genomics Research: Supplies curated best-hit alignments for downstream genomics analyses that require precise alignment choices.

Methodology:

Parses BLAST tabular output files and selects the best hit per query based on predefined criteria such as score or e-value, and interfaces with Galaxy via its API or the Bioblend library for workflow execution.