PolyAseqTrap v1.0.0

This is the first official release of PolyAseqTrap (v1.0.0), a universal tool for genome-wide identification and quantification of polyadenylation sites from diverse 3′ end sequencing data.

Key features:

• Identify, correct, and classify polyA sites using a polyA-read prioritization model and sequence/genome-based strategies.
• Remove internal priming artifacts with deep learning models trained on A-rich DNA sequences.
• Cluster polyA sites via a density peak clustering model to capture species-specific cleavage microheterogeneity and define site clusters.
• Annotate polyA sites and generate detailed reports at the read, site, and cluster levels.
• Evaluate polyA sites quantitatively using reference collections, polyA signals, and nucleotide composition analysis.