Fonseca NA, Rung J, Brazma A, Marioni JC. (2012) Tools for mapping high-throughput sequencing data. Bioinformatics. doi: 10.1093/bioinformatics/bts605 [Epub ahead of print]
Motivation: A ubiquitous and fundamental step in high-throughput sequencing analysis is the alignment (mapping) of the generated reads to a reference sequence. To accomplish this task numerous software tools have been proposed. Determining the mappers that are most suitable for a specific application is not trivial.
Results: This survey focuses on classifying mappers through a wide number of characteristics. The goal is to allow practitioners to compare the mappers more easily and find those that are most suitable for their specific problem.
Availability: A regularly updated compendium of mappers can be found at http://wwwdev.ebi.ac.uk/fg/hts_mappers/.