A dataset containing methylation values for cell-separated samples. The methylation was measured using bisulfite sequencing. The data also contains the genomic position of these CpG sites, as well as a binary phenotype (i.e. whether the sample comes from a B cell).
methylationpheno
position
index
pheno2
position2
methylation2
The data comes in four objects:
Matrix of methylation values at 5,986 sites measured on 40 samples
Vector of phenotype, indicating whether the sample comes from a B cell
Data frame recording the position of each CpG site along the chromosome
Index vector used in the computation of PCEV-block
Matrix of methylation values at 1000 sites measured on 40 samples
Vector of phenotype, indicating the cell type of the sample (B cell, T cell, or Monocyte)
Data frame recording the position of each CpG site along the chromosome
Methylation was first measured at 24,068 sites, on 40 samples. Filtering was performed to keep the 25% most variable sites. See the vignette for more detail.
A second sample of the methylation dataset was extracted. This second dataset contains methylation values at 1000 CpG dinucleotides.