SparseCovReg Analysis

This GitHub repository contains the codes for reproducing the analysis in ''High-dimensional covariance regression with application to co-expression QTL detection''.

code

This folder contains the codes for reproducing the analysis in Sections 5, 6 and the supplementary material of the paper (simulation studies and real data studies).

1. simul.R: All results of simulation in the main manuscript (Section 5) can be reproduced by this file.
2. simul_supp.R: All results of simulation in the supplementary materials (Section S9) can be reproduced by this file.
3. simul_CV.R: Tuning parameters for simulation in the main manuscript (Section 5) can be selected by this file.
4. data_analysis.R: All results of real data analysis in the main manuscript (Section 6) and the supplementary materials (Section S8) can be reproduced by this file.

data

This folder contains all the utilized data and output from both simulation and real data analyses.

1. main: All the utilized data and output of simulation (Section 5) and real data analysis (Section 6) in the main manuscript are included in this folder.
2. supp: All the utilized data and output of simulation in the supplementary materials (Section S9) are included in this folder.
3. GBMdata: Raw data files for 178 patients with glioblastoma multiforme (GBM) from the REMBRANDT study (GSE108476)