Node_obj_mRNA_Classifier {bioCancer} | R Documentation

## Atrribute genes expression to color nodes

### Description

Atrribute genes expression to color nodes

### Usage

    Node_obj_mRNA_Classifier(geneList,genesclassdetails)

### Arguments

`geneList` | A gene list.
`genesclassdetails` | A dataframe with genes classes and genes expression.

### Value

A data frame with node color attributes

### Examples

    r_data <- new.env()
    input <- NULL

    r_data[["FreqIn"]] <- structure(list(Genes = c("ATM", "ATR", "BRCA1", "BRCA2", "CHEK1",
    "CHEK2", "FANCF", "MDC1", "RAD51"), FreqSum = c(0.04, 0.05, 0.05,
     0.03, 0.05, 0.04, 0.03, 0.03, 0.02)), .Names = c("Genes", "FreqSum"),
     class = "data.frame", row.names = c(NA, -9L))

    GenesClassDetails <- structure(list(Genes = c("FANCF", "MLH1", "MSH2", "ATR", "PARP1",
    "CHEK2", "RAD51"), ranking = c(1L, 1L, 1L, 2L, 3L, 1L, 2L), class = c("brca_tcga",
    "gbm_tcga", "lihc_tcga", "lihc_tcga", "lihc_tcga", "lusc_tcga",
    "lusc_tcga"), postProb = c(1, 0.99, 1, 0.99, 0.99, 1,
    0.98), exprsMeanDiff = c(180, 256, -373, -268,
    -1482, 258, 143), exprsUpDw = c("UP", "UP", "DOWN",
    "DOWN", "DOWN", "UP", "UP")), .Names = c("Genes", "ranking",
    "class", "postProb", "exprsMeanDiff", "exprsUpDw"),
    class = "data.frame", row.names = c(NA,-7L))
    ## Not run:
    GeneList <- whichGeneList("DNA_damage_Response")
    nodeObj <- Node_obj_mRNA_Classifier(GeneList, GenesClassDetails)

    ## End(Not run)

[Package bioCancer version 1.22.0 Index]