intronProspector

Identify putative introns in RNA-Seq alignments in BAM/SAM alignments. This works with both short and long-read RNA sequencing.

• intronProspector - calls introns from SAM/BAM files
• intronProspectorMerge - merges output from multiple intronProspector runs or convert between formats

Usage is described in the intronProspector manual page and intronProspectorMerge manual page

Installation

See INSTALL.md for instation

The only dependencies are htslib and a modern C++ compiler

Origins

This code is derived from the Griffith Lab's excellent RegTools package.