doi: 10.1093/bioinformatics/btm108.
Epub 2007 Mar 23.
GenABEL: an R library for genome-wide association analysis
Affiliations
- PMID: 17384015
- DOI: 10.1093/bioinformatics/btm108
Item in Clipboard
GenABEL: an R library for genome-wide association analysis
Bioinformatics.
.
Abstract
Here we describe an R library for genome-wide association (GWA) analysis. It implements effective storage and handling of GWA data, fast procedures for genetic data quality control, testing of association of single nucleotide polymorphisms with binary or quantitative traits, visualization of results and also provides easy interfaces to standard statistical and graphical procedures implemented in base R and special R libraries for genetic analysis. We evaluated GenABEL using one simulated and two real data sets. We conclude that GenABEL enables the analysis of GWA data on desktop computers.
Availability: http://cran.r-project.org.
Similar articles
-
CollapsABEL: an R library for detecting compound heterozygote alleles in genome-wide association studies.BMC Bioinformatics. 2016 Apr 8;17:156. doi: 10.1186/s12859-016-1006-9. BMC Bioinformatics. 2016. PMID: 27059780 Free PMC article.
-
ParallABEL: an R library for generalized parallelization of genome-wide association studies.BMC Bioinformatics. 2010 Apr 29;11:217. doi: 10.1186/1471-2105-11-217. BMC Bioinformatics. 2010. PMID: 20429914 Free PMC article.
-
ProbABEL package for genome-wide association analysis of imputed data.BMC Bioinformatics. 2010 Mar 16;11:134. doi: 10.1186/1471-2105-11-134. BMC Bioinformatics. 2010. PMID: 20233392 Free PMC article.
-
Genome information resources - developments at Ensembl.Trends Genet. 2004 Jun;20(6):268-72. doi: 10.1016/j.tig.2004.04.002. Trends Genet. 2004. PMID: 15145580 Review.
-
OPATs: Omnibus P-value association tests.Brief Bioinform. 2019 Jan 18;20(1):1-14. doi: 10.1093/bib/bbx068. Brief Bioinform. 2019. PMID: 28981573 Free PMC article. Review.
Cited by
-
Power of association tests in the presence of multiple causal variants.BMC Proc. 2011 Nov 29;5 Suppl 9(Suppl 9):S63. doi: 10.1186/1753-6561-5-S9-S63. BMC Proc. 2011. PMID: 22373395 Free PMC article.
-
Genomic regions associated with pseudorabies virus infection status in naturally infected feral swine (Sus scrofa).Front Genet. 2023 Nov 23;14:1292671. doi: 10.3389/fgene.2023.1292671. eCollection 2023. Front Genet. 2023. PMID: 38075681 Free PMC article.
-
Whole-genome resequencing of honeybee drones to detect genomic selection in a population managed for royal jelly.Sci Rep. 2016 Jun 3;6:27168. doi: 10.1038/srep27168. Sci Rep. 2016. PMID: 27255426 Free PMC article.
-
Genetic effects and correlations between production and fertility traits and their dependency on the lactation-stage in Holstein Friesians.BMC Genet. 2012 Dec 17;13:108. doi: 10.1186/1471-2156-13-108. BMC Genet. 2012. PMID: 23244492 Free PMC article.
-
A novel analytical method, Birth Date Selection Mapping, detects response of the Angus (Bos taurus) genome to selection on complex traits.BMC Genomics. 2012 Nov 9;13:606. doi: 10.1186/1471-2164-13-606. BMC Genomics. 2012. PMID: 23140540 Free PMC article.
Publication types
MeSH terms
LinkOut - more resources
Full Text Sources
Other Literature Sources
