beta_emp: Simulated methylation 450K array data with related

In TOAST: Tools for the analysis of heterogeneous tissues

Description

This dataset is a list containing two matrices, one of which is methylation 450K array data of 3000 CpG sites on 50 samples, the other is methylation 450K array data of 3000 matched CpG sites on three immune cell types. The first dataset is generated by simulation. It originally has 459226 features and 50 samples.We reduce it to 3000 CpGs by random selection.

Usage

data("beta_emp")

Format

The format is: List of 2 $ Y.raw: num [1:3000, 1:50] 0.7661 0.0968 0.8882 0.0286 0.6956 ... ..- attr(*, "dimnames")=List of 2 .. ..$ : chr [1:3000] "cg08752431" "cg14555682" "cg23086843" "cg20308511" ... .. ..$ : NULL $ ref.m: num [1:3000, 1:3] 0.7712 0.0996 0.9065 0.037 0.7242 ... ..- attr(*, "dimnames")=List of 2 .. ..$ : chr [1:3000] "cg08752431" "cg14555682" "cg23086843" "cg20308511" ... .. ..$ : chr [1:3] "CD4T" "CD8T" "BCell"

Examples

data(beta_emp)

Example output

Loading required package: RefFreeEWAS
Loading required package: quadprog
Loading required package: EpiDISH
Loading required package: limma
Loading required package: nnls

TOAST documentation built on Nov. 8, 2020, 5:55 p.m.