pe_filter

pe_filter splits sorted paired-end FASTA sequences into two separate files to enable independent handling of each read for downstream genomic analyses.

Key Features:

• Data Segregation: Splits sorted paired-end FASTA sequences into two separate files to allow each read end to be processed independently or in parallel workflows.
• Reproducibility and Transparency: Records operations in the Galaxy history to provide provenance supporting review, publication, and reuse of analyses.
• Scalability: Operates within the Galaxy infrastructure to process large-scale biomedical sequencing datasets.

Scientific Applications:

• Genome assembly: Provides separate paired-read files to support genome assembly workflows.
• Variant calling: Enables preprocessing of paired reads prior to variant calling pipelines.
• Transcriptome analysis: Supports paired-end RNA-seq workflows by separating mate pairs for alignment and quantification.
• Metagenomics: Allows independent analysis of paired reads in metagenomic profiling and community assembly.

Methodology:

Automated separation of paired-end FASTA sequences into distinct files with operations logged in Galaxy history for provenance.