Open AccessR/qtlbim: QTL with Bayesian Interval Mapping in experimental crosses
Author(s) -
Brian S. Yandell,
Tapan Mehta,
Samprit Banerjee,
Daniel Shriner,
Ramprasad Venkataraman,
JeeYoung Moon,
W. Whipple Neely,
Hao Wu,
R. V. Smith,
Nengjun Yi
Publication year - 2007
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/btm011
Subject(s) - quantitative trait locus , markov chain monte carlo , inclusive composite interval mapping , computer science , bayesian probability , epistasis , family based qtl mapping , artificial intelligence , biology , genetics , gene mapping , gene , chromosome
R/qtlbim is an extensible, interactive environment for the Bayesian Interval Mapping of QTL, built on top of R/qtl (Broman et al., 2003), providing Bayesian analysis of multiple interacting quantitative trait loci (QTL) models for continuous, binary and ordinal traits in experimental crosses. It includes several efficient Markov chain Monte Carlo (MCMC) algorithms for evaluating the posterior of genetic architectures, i.e. the number and locations of QTL, their main and epistatic effects and gene-environment interactions. R/qtlbim provides extensive informative graphical and numerical summaries, and model selection and convergence diagnostics of the MCMC output, illustrated through the vignette, example and demo capabilities of R (R Development Core Team 2006).
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