match_exp_cl function

match_exp_cl

match exp and clinical data from TCGA

match_exp_cl(exp, cl, id_column = "id", sample_centric = TRUE)

Arguments

• exp: TCGA expression set
• cl: TCGA clinical data.frame
• id_column: which column contains patient ids, column number or colnmn name.
• sample_centric: logical,deault T,keep all samples from the same patients.if FALSE,keep only one tumor sample for one patient.

Returns

a transformed clinical data.frame with sample ids.

Examples

a = match_exp_cl(exp_hub1,meta1[,2:4],"X_PATIENT")
exp_matched = a[[1]]
cl_matched = a[[2]]
b = match_exp_cl(exp_hub1,meta1[,2:4],"X_PATIENT",sample_centric = FALSE)
exp_matched = b[[1]]
cl_matched = b[[2]]

See Also

make_tcga_group;sam_filter

Author(s)

Xiaojie Sun