INDEED-package | INDEED: A network-based method for cacner biomarker discovery. |
choose_rho | Draw error curve |
compute_cor | Compute the correlation |
compute_dns | Calculate the differential network score |
compute_par | Compute the partial correlation |
INDEED | INDEED: A network-based method for cacner biomarker discovery. |
loglik_ave | Create log likelihood error |
Met_Group_GU | Group label. |
Met_GU | GU cirrhosis (CIRR) and GU Hepatocellular carcinoma (HCC) data. |
Met_name_GU | KEGG ID |
network_display | Interactive Network Visualization |
non_partial_cor | Non-partial correlaton analysis |
partial_cor | Partial correlaton analysis |
permutation_cor | Permutations to build a differential network based on correlation analysis |
permutation_pc | Permutations to build differential network based on partial correlation analysis |
permutation_thres | Calculate the positive and negative thresholds based on the permutation result |
pvalue_logit | Obtain p-values using logistic regression |
pvalue_M_GU | P-values obtained by differential expression (DE) analysis. |
scale_range | Scale list of numbers |
select_rho_partial | Data preprocessing for partial correlaton analysis |