ABC.RAP (version 0.9.0)

CpG_hits: Identifying genes for which multiple CpG sites show significant methylation difference

Description

This function calculates the number of significantly different CpG sites between cases and controls for each gene and produces a frequency table with genes that have more than one CpG site.

Usage

CpG_hits(x)

Arguments

x

Results from the overlap_data function

Examples

data(test_data)
data(nonspecific_probes)
data(annotation_file)
test_data_filtered <- filter_data(test_data)
test_data_ttest <- ttest_data(test_data_filtered, 1, 2, 3, 4, 1e-3)
test_data_delta_beta <- delta_beta_data(test_data_filtered, 1, 2, 3, 4, 0.5, -0.5, 0.94, 0.06)
test_overlapped_data <- overlap_data(test_data_ttest, test_data_delta_beta)
test_CpG_hits <- CpG_hits(test_overlapped_data)