getDEscore

Function "getDEscore" uses gene expression profile to calculate Log2 Fold Change of genes.

A systematic biology tool was developed to repurpose drugs via a subpathway crosstalk network. The operation modes include 1) calculating centrality scores of SPs in the context of gene expression data to reflect the influence of SP crosstalk, 2) evaluating drug-disease reverse association based on disease- and drug-induced SPs weighted by the SP crosstalk, 3) identifying cancer candidate drugs through perturbation analysis. There are also several functions used to visualize the results.

Junwei Han

DRviaSPCN

Drug Repurposing in Cancer via a Subpathway Crosstalk Network

Jiashuo Wu

getDEscore function

<dl><dt>inexpData</dt>
<dd>A gene expression profile of interest (rows are genes, columns are samples).The data in the expression profile is best not be log2 converted.</dd>
<dt>Label</dt>
<dd>A character vector consist of "0" and "1" which represent sample class in gene expression profile. "0" means normal sample and "1" means disease sample.</dd></dl>

Arguments

Calculating Log2 Fold Change of genes — getDEscore

<dl>

<dt>inexpData</dt>
<dd>A gene expression profile of interest (rows are genes, columns are samples).The data in the expression profile is best not be log2 converted.</dd>


<dt>Label</dt>
<dd>A character vector consist of "0" and "1" which represent sample class in gene expression profile. "0" means normal sample and "1" means disease sample.</dd>

</dl>

getDEscore: Calculating Log2 Fold Change of genes

Description

Usage

Value

Arguments