Analysis scripts and relative data used in the paper "Genetic determinants of the molecular portraits of epithelial cancers" by Xia et al.
contains many .rda files ready to use in the analysis.
helper.R: This script has many R functions used in the analysis.
signature_score_and_segment_score_calculation.R: This script is used to calculate signature scores from RNA expression data and segment scores from gene-level copy number data.
association_test.R: This script is used to perform genome wide association tests between gene signatures and DNA copy number alterations.
Elastic_Net_modeling.R: This script is used to perfrom Elastic Net modeling analysis. All data used to build Elastic Net models are included in Data folder.