t_test.Mat_identical.vs.different: Test with a Welch t-test between the group of similar tissues...

In barzine/barzinePhdR: Code developed while and for my PhD thesis at the EMBL-EBI

Test with a Welch t-test between the group of similar tissues versus the group of different tissues. Take the diagonal and test it versus the lower triangle of the matrix.

Description

Test with a Welch t-test between the group of similar tissues versus the group of different tissues. Take the diagonal and test it versus the lower triangle of the matrix.

Usage

t_test.Mat_identical.vs.different(Mat, yLab,
  label.diag = "Same-tissue pairs",
  label.low.tri = "Different tissues pairs", xLab = "Type",
  pval = TRUE, showMean = TRUE, output = "test", publish = TRUE)

Arguments

Mat	correlation matrix between two studies tissue expression (column correlation)
yLab	character string. Title of the y-axis
label.diag	character string. Label for the pairs in the diagonal of the matrix.
label.low.tri	character string. Label for the pairs in the lower.triangle of the matrix.
xLab	character string. Title of the x-axis. Default: 'Type'.
pval	boolean. Default: TRUE. Whether to add the p-value on the plot.
showMean	boolean. Default: TRUE. Whether to add the mean of each group on the plot.
output	character string that allows to pick the output; 'identical' for the same pairs of tissues, 'different' for the different pairs of tissues, 'test' for the test, 'plot' for the plot and 'test_identical' for a list comprising the identical tissues and the test.
publish	boolean. Default: TRUE. Whether to apply theme_bw().

Value

depends on 'output'; it can be a data.frame, a figure or the result of the test.

barzine/barzinePhdR documentation built on Nov. 23, 2024, 8:54 p.m.