R/parallel - speeding up bioinformatics analysis with R

Background: R is the preferred tool for statistical analysis of many bioinformaticians due in part to the increasing number of freely available analytical methods. Such methods can be quickly reused and adapted to each particular experiment. However, in experiments where large amounts of data are generated, for example using high-throughput screening devices, the processing time required to analyze data is often quite long. A solution to reduce the processing time is the use of parallel computing technologies. Because R does not support parallel computations, several tools have been developed to enable such technologies. However, these tools require multiple modications to the way R programs are usually written or run. Although these tools can finally speed up the calculations, the time, skills and additional resources required to use them are an obstacle for most bioinformaticians. Results: We have designed and implemented an R add-on package, R/parallel, that extends R by adding use...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Gonzalo Vera, Ritsert C. Jansen, Remo Suppi
• Keywords: Available Analytical Methods, BMCBI 2008, Processing Time, Tools