SEAL: a distributed short read mapping and duplicate removal tool

Summary: SEAL is a scalable tool for short read pair mapping and duplicate removal. It computes mappings that are consistent with those produced by BWA and removes duplicates according to the same criteria employed by Picard MarkDuplicates. On a 16-node Hadoop cluster, it is capable of processing ab...

Descripción completa

Detalles Bibliográficos
Autores principales: Pireddu, Luca, Leo, Simone, Zanetti, Gianluigi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2011
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3137215/
https://www.ncbi.nlm.nih.gov/pubmed/21697132
http://dx.doi.org/10.1093/bioinformatics/btr325
Descripción
Sumario:Summary: SEAL is a scalable tool for short read pair mapping and duplicate removal. It computes mappings that are consistent with those produced by BWA and removes duplicates according to the same criteria employed by Picard MarkDuplicates. On a 16-node Hadoop cluster, it is capable of processing about 13 GB per hour in map+rmdup mode, while reaching a throughput of 19 GB per hour in mapping-only mode. Availability: SEAL is available online at http://biodoop-seal.sourceforge.net/. Contact: luca.pireddu@crs4.it

Ejemplares similares