dmrff.stats: dmrff.stats

In perishky/dmrff: Identifying differentially methylated regions efficiently with power and control

dmrff.stats

Description

Calculate statistics for a set of genomic regions.

Usage

dmrff.stats(regions, estimate, se, methylation, chr, pos, verbose = T)

Arguments

regions	Data frame of genomic regions providing chromosome (chr), start and end coordinates.
estimate	Vector of EWAS effect estimates (corresponds to rows of methylation).
se	Vector of standard errors of the coefficients.
methylation	Methylation matrix (rows=features, columns=samples).
chr	Feature chromosome (corresponds to rows of methylation).
pos	Feature chromosome position.
verbose	If TRUE (default), then output status messages.

Details

Warning! Ensure that the order of the CpG sites corresponding to the the rows of 'methylation' match the order of the CpG sites corresponding to the other variables, e.g. 'estimate' and 'chr'.

Value

A data frame listing summary statistics for all genomic regions.

perishky/dmrff documentation built on Jan. 4, 2024, 10:23 p.m.