check_accuracy4cluster

Significant test of TF binding affinity changes between the foreground and the background calculations

Required Parameters

• background_folder: Folder containing the computed background model produced by background_affinity_changes.py.

• foreground_folder: Folder containing the computed delta-dba values for patient data produced by bayespi_bar.py.

Optional Parameters

• output_file: Output file name. The default is “-” (hyphen).

• p_value: P-value cutoff for the Wilcoxon test. The default value is 0.05.

• max_rank: Maximum rank of PWM to consider in the patient results. The default value is 15.

• exact_test: Use exact Wilcoxon rank-sum test from R. R needs to be installed. The default is False.

• pval_correction: Whether to adjust P-values by Bonferroni correction. The default is False.