combp2: Run mediation analysis for a set of markers
In jumentib/highmed: High Dimensionnal Mediation Analysis

Description Usage Arguments Details Value Author(s)

Function adapt from the combp function() of the ENmix package

1	combp2(data, dist.cutoff = 1000, bin.size = 310, seed = 0.01, nCores = 10)

`data`	A data frame from bed format file with colname name "V1","V2", "V3","V4","V5",V1 indicate chromosome (1,2,3,...,X,Y), V2 is chromosome position, V4 is for P value and V5 for name of CpGs.
`dist.cutoff`	Maximum distance in base pair to combine adjacent DMRs.
`bin.size`	bin size for autocorrelation calculation.
`seed`	FDR significance threshold for initial selection of DMR region.
`nCores`	Number of computer cores used in calculation

The input should be a data frame with column name V1-V5, indicating chromosome, start position,end position, pValues and probe names. The function will use a modified comb-p method to identify differentially methylated regions.

Results of the DMRs analysis.

Basile Jumentier

jumentib/highmed documentation built on Sept. 3, 2020, 2 p.m.