This dataset involves LD of ImmunoBase SNPs calculated by PLINK based on the 1000 Genomics Project data (phase 3).
ImmunoBase_LD <- dRDataLoader(RData.customised = "ImmunoBase_LD")
a list of sparse Matrix of class "dgCMatrix". Each list represents one of 5 super populations, containing sparse matrix of ImmunoBase lead SNPs (rows) and LD SNPs (columns). Non-zero values indicate r2 (only those no less than 0.8). The population include 5 super populations ("AFR", "AMR", "EAS", "EUR", "SAS"). Explanations for these super-population code can be found at http://www.1000genomes.org/faq/which-populations-are-part-your-study.
Malone et al. (2010) Modeling sample variables with an Experimental Factor Ontology. Bioinformatics, 26(8):1112-8.
ImmunoBase_LD <- dRDataLoader(RData.customised='ImmunoBase_LD')Error in dRDataLoader(RData.customised = "ImmunoBase_LD"): unused argument (RData.customised = "ImmunoBase_LD")names(ImmunoBase_LD)Error in eval(expr, envir, enclos): object 'ImmunoBase_LD' not found# view the few first data for European population (EUR) ImmunoBase_LD$EUR[1:50,1:30]Error in eval(expr, envir, enclos): object 'ImmunoBase_LD' not found