Complete methyl_surro Object

A methyl_surro object built from complete methylation data, with all weight probes present. Structurally missing probes have been filled from reference means using reference_fill, so the methylation matrix contains no missing values.

Usage

methyl_surro_comp

Format

An object of class methyl_surro: a list with three components:

methyl

A 10 x 5 numeric matrix (weight probes x samples) with no missing values.

weights

A named numeric vector of 10 linear regression weights (intercept removed).

intercept

The numeric intercept value.

Source

Built from beta_matrix_comp, wts_df, and ref_df via surro_set() and reference_fill()

See also

methyl_surro_miss, surro_set, reference_fill, surro_calc

Examples

data(methyl_surro_comp)
str(methyl_surro_comp)
#> List of 3
#>  $ methyl   : num [1:10, 1:5] 0.288 0.9 0.89 0.963 0.143 ...
#>   ..- attr(*, "dimnames")=List of 2
#>   .. ..$ : chr [1:10] "cg02" "cg07" "cg08" "cg13" ...
#>   .. ..$ : chr [1:5] "samp1" "samp2" "samp3" "samp4" ...
#>  $ weights  : Named num [1:10] -0.00908 -0.00116 0.00598 -0.00756 0.00122 ...
#>   ..- attr(*, "names")= chr [1:10] "cg02" "cg03" "cg06" "cg07" ...
#>  $ intercept: Named num 1.21
#>   ..- attr(*, "names")= chr "Intercept"
#>  - attr(*, "class")= chr "methyl_surro"