PSI-Sigma

PSI-Sigma analyzes alternative pre-mRNA splicing events from short-read and long-read RNA sequencing data and quantifies splicing using a Percent Spliced-In (PSI) index.

Key Features:

• PSI Index: Provides precise quantification of alternative splicing changes using a Percent Spliced-In metric.
• Benchmarking with Real Data: Validates PSI measurements using RNA-seq datasets from spliced synthetic genes (RNA Sequins).
• Performance Evaluation: Compares detection performance against rMATS, SUPPA2, and Whippet and reports improved detection of multiple AS events.

Scientific Applications:

• Alternative Splicing Studies: Enables detailed analysis of splicing patterns in complex transcriptomes across sequencing platforms.

Methodology:

Computes a Percent Spliced-In (PSI) index from short-read and long-read RNA-seq data and benchmarks PSI quantification against real RNA-seq datasets (RNA Sequins) and comparator tools rMATS, SUPPA2, and Whippet.