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Scripts included:

  1. 0.Process_ICGC_toNoWGD.R
    Description: Script for preprocessing data from the ICGC dataset to exclude whole-genome duplication (WGD) cases.

  2. 0.Process_TCGA_toNoWGD.R
    Description: Script for preprocessing data from the TCGA dataset to exclude whole-genome duplication (WGD) cases.

  3. 1.chr_arm_del_permutation.py
    Description: Python script to perform permutation analysis for chromosome arm deletions across samples.

  4. 2.Prevalence_plot_desc.R
    Description: R script to generate descriptive plots of prevalence data related to chromosome arm deletions.