ABC.RAP (version 0.9.0)

ttest_data: applying t-test analysis

Description

This function applies "two.sided", unequal variance Student's t-test analysis for each probe comparing cases and controls. A cutoff for p-values can be entered to minimise multiple testing bias to filter insignificant p-values.

Usage

ttest_data(x, cases_column_1, cases_column_n, controls_column_1, controls_column_n, ttest_cutoff)

Arguments

x

The filtered 450k probes from filter_data() function

cases_column_1

The first column (column number) for cases in the filtered dataset

cases_column_n

The last column (column number) for cases in the filtered dataset

controls_column_1

The first column (column number) for controls in the filtered dataset

controls_column_n

The last column (column number) for controls in the filtered dataset

ttest_cutoff

The cutoff level to filter insignificant p-values

Examples

data(test_data)
data(nonspecific_probes)
test_data_filtered <- filter_data(test_data)
test_data_ttest <- ttest_data(test_data_filtered, 1, 2, 3, 4, 1e-3)