MapSplice

Search Software

MapSplice is an algorithm for mapping RNA-seq data to reference genome for splice junction discovery.

Features of MapSplice include1. alignment of both short reads < 75bp and long reads >= 75bp.2. both CPU and memory efficiency.3. detection of small exons.4. discovery of canonical, semi-canonical and non-canonical junctions.5. splice inference based on the alignment quality and diversity of reads mapped to a junction.6. identification of chimeric events (intra-chromosomes and inter-chromosomes, inter-strands) with long reads.7. support paired-end reads and single-end reads

SW Documentation: 

To run this software interactively in a Linux environment run the commands:

module load bowtie mapsplice

mapsplice_search

Home Page: MapSplice page

 

Short Name: 
mapsplice
SW Module: 
mapsplice
Service Level: 
Minimal
SW Category: