Select gene expression data in primary, metastatic tumors vs adjacent normal tissues from all TCGA cancer types combined

Source: R/DEG.R

This function selects the RNAseq data from TCGA samples including tumor samples that are labeled as metastatic, primary tumor, and solid tissue normal for comparison. It should not be used directly, only inside .plot_boxgraph_RNAseq_TCGA() function.

.RNAseq_tumortype(df)

Arguments

df

.TCGA_GTEX_RNAseq_sampletype_subset generated inside .plot_boxgraph_RNAseq_TCGA()

Value

a data frame of differential gene expression in tumors vs adjacent normal tissues in individual TCGA cancer types

See also

Other helper function for differential expression analysis: .RNAratio_calculation(), .RNAratio_selection(), .RNAratio_tumortype(), .RNAseq_all_gene(), .RNAseq_ind_gene()