We found a match
Your institution may have access to this item. Find your institution then sign in to continue.
- Title
GWASTools: an R/Bioconductor package for quality control and analysis of genome-wide association studies.
- Authors
Gogarten, Stephanie M.; Bhangale, Tushar; Conomos, Matthew P.; Laurie, Cecelia A.; McHugh, Caitlin P.; Painter, Ian; Zheng, Xiuwen; Crosslin, David R.; Levine, David; Lumley, Thomas; Nelson, Sarah C.; Rice, Kenneth; Shen, Jess; Swarnkar, Rohit; Weir, Bruce S.; Laurie, Cathy C.
- Abstract
Summary: GWASTools is an R/Bioconductor package for quality control and analysis of genome-wide association studies (GWAS). GWASTools brings the interactive capability and extensive statistical libraries of R to GWAS. Data are stored in NetCDF format to accommodate extremely large datasets that cannot fit within R’s memory limits. The documentation includes instructions for converting data from multiple formats, including variants called from sequencing. GWASTools provides a convenient interface for linking genotypes and intensity data with sample and single nucleotide polymorphism annotation.Availability and implementation: GWASTools is implemented in R and is available from Bioconductor (http://www.bioconductor.org). An extensive vignette detailing a recommended work flow is included.Contact: sdmorris@uw.edu
- Subjects
GENOMICS; QUALITY control; GENOTYPE-environment interaction; GENETIC polymorphisms; WORKFLOW
- Publication
Bioinformatics, 2012, Vol 28, Issue 24, p3329
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/bts610