A New Method for Constructing Tumor Specific Gene Co-Expression Networks Based on Samples with Tumor Purity Heterogeneity
To check how TSNet works run file R/TSNet_Estimation_Example.R which
1) Generates Synthetic Data as in section 3 of [1]
2) Estimates Tumor Purity
3) Estimates Co-expression networks for the tumor and non-tumor components for a given value of penalty parameters
We are currently working on the R package which will be submitted to R Cran as TSNet shortly.
[1] Francesca Petralia, Li Wang , Jie Peng , Arthur Yan, Jun Zhu and Pei Wang, A new method for constructing tumor specific gene co-expression networks based on samples with tumor purity heterogeneity.