Get correlation between samples based on bias corrected deviations
getSampleCorrelation(object, threshold = 1.5)
| object | deviations result |
|---|---|
| threshold | threshold for variability |
correlation matrix between samples
This function will compute the correlation between samples based on the normalized deviations. It will first remove correlated motifs/peak sets. Then the pearson correlation coefficient will be computed and returned.
# NOT RUN { # Load very small example results from computeDeviations data(mini_dev, package = "chromVAR") sample_cor <- getSampleCorrelation(mini_dev, threshold = 0.8) # setting very low variabilitiy threshold because this is mini data set # threshold should generally be above 1 # Use plotVariability to get a sense of an appropriate threshold # As this is mini data set, results probably not meaningful! # }