Crossbow is a scalable software pipeline for whole genome resequencing analysis. It combines Bowtie, an ultrafast and memory efficient short read aligner, and SoapSNP, and an accurate genotyper. These tools are combined in an automatic, parallel pipeline that runs in the cloud (Elastic MapReduce in this case) on a local Hadoop cluster, or on a single computer, exploiting multiple computers and CPUs wherever possible. The pipeline can analyze over 35x coverage of a human genome in one day on a 10-node local cluster, or in 3 hours for about $85 using a 40-node, 320-core cluster rented from Amazon Web Services.$
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References in zbMATH (referenced in 2 articles )
Showing results 1 to 2 of 2.
- Radenski, Atanas; Ehwerhemuepha, Louis: Speeding-up codon analysis on the cloud with local MapReduce aggregation (2014) ioport
- Daugelaite, Jurate; O’Driscoll, Aisling; Sleator, Roy D.: An overview of multiple sequence alignments and cloud computing in bioinformatics (2013)