Heatmap for Correlation between Gene and Immune Signatures

Usage

vis_gene_immune_cor(
  Gene = "TP53",
  cor_method = "spearman",
  data_type = "mRNA",
  Immune_sig_type = "Cibersort",
  Plot = "TRUE",
  opt_pancan = .opt_pancan
)

Arguments

Gene: a molecular identifier (e.g., "TP53") or a formula specifying genomic signature ("TP53 + 2 * KRAS - 1.3 * PTEN").
cor_method: correlation method
data_type: choose gene profile type, including "mRNA", "transcript", "protein", "mutation", "cnv", "methylation", "miRNA".
Immune_sig_type: quantification method, default is "Cibersort"
Plot: output the plot directly, default 'TRUE'
opt_pancan: specify one dataset for some molercular profiles

Examples

if (FALSE) { # \dontrun{
p <- vis_gene_immune_cor(Gene = "TP53")
} # }