select_genes {CEMiTool} | R Documentation |
Select genes based on variance
select_genes(expr, n_genes, filter_pval = 0.1)
expr |
A data.frame containing expression values |
n_genes |
(Optional) Number of genes to be selected |
filter_pval |
P-value cutoff for gene selection |
A vector containing the names of selected genes
# Get example expression data data(expr0) # Filter genes expr_f <- filter_genes(expr0) # Check selected genes expr_f[1:5, 1:5] # Filter genes and apply variance stabilizing transformation expr_f2 <- filter_genes(expr0, apply_vst=TRUE) # Check results expr_f2[1:5, 1:5] # Selected genes selected <- select_genes(expr_f2) # Get data.frame with only selected genes expr_s <- expr_f2[selected, ] # Check results expr_s[1:5, 1:5]