INDEED: INDEED: A package for biomarker candidate prioritization.

In cx30/INDEED: An Implementation of Integrated Differential Expression and Differential Network Analysis for Biomarker Candidate Selection

Description

The INDEED package provides a important function below: select_sig

select_sig function

The select_sig function provides the users with few options. By setting partial = TRUE, the differential network is obtained using partial correlation. This function is also interactive in the sense that it provides users with few options in the console for the selection of regularization parameter rho as well number of permutations. With partial = FALSE, correlation will be used to get the differential network. In addtion, the default method for the correlation part is "pearson". Otherwise, use method = "spearman" to obtain Spearman correlation coefficient. The p_val: gives users more flexibility by allowing the users to provide their own p-value tables. If NULL, p-values will be calculated for the users using logistic regression.

cx30/INDEED documentation built on May 5, 2019, 2:41 a.m.