intePareto (version 0.0.1)

doIntegration: Do integrative analysis

Description

doIntegration calculate log2FoldChange of RNA-Seq and ChIP-Seq and then calculate Z scores for each marker.

Usage

doIntegration(res, ref, type = "apeglm", apeAdapt = FALSE)

Arguments

res

a list result from doMatch function.

ref

specifying the reference level

type

shrinkage estimator, default is "apeglm", the adaptive t prior shrinkage estimator from the 'apeglm' package.

apeAdapt

logical, should apeglm use the MLE estimates of LFC to adapt the prior, or use default.

Value

df_final a dataframe contains log2FoldChange of RNA-Seq and ChIP-Seq and Z scores for each marker.

Examples

Run this code
# NOT RUN {
data(res)
# }
# NOT RUN {
doIntegration(res = res,ref="wild.type")
# }
# NOT RUN {
# }

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