ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data

• DOI: 10.1093/bioinformatics/btp450
• Publication Date: 2009-08-05T00:13:27Z
• Authors: Martin Morgan; Simon Anders; Michael Lawrence; Patrick Aboyoun; Hervé Pagès; Robert Gentleman
• Keywords: 0301 basic medicine; Applications Note; 03 medical and health sciences; Gene Expression Profiling; Databases, Genetic; Computational Biology; Sequence Analysis, DNA; Software

Abstract Summary: ShortRead is a package for input, quality assessment, manipulation and output of high-throughput sequencing data. ShortRead is provided in the R and Bioconductor environments, allowing ready access to additional facilities for advanced statistical analysis, data transformation, visualization and integration with diverse genomic resources. Availability and Implementation: This package is implemented in R and available at the Bioconductor web site; the package contains a ‘vignette’ outlining typical work flows. Contact: [e-mail]