surv_KM function

surv_KM

calculate log_rank test p values for genes

surv_KM(
  exprSet_hub,
  meta,
  cut.point = FALSE,
  pvalue_cutoff = 0.05,
  min_gn = 0.1
)

Arguments

• exprSet_hub: a tumor expression set for hubgenes
• meta: meta data corresponds to expression set
• cut.point: logical , use cut_point or not, if FALSE,use median by defult
• pvalue_cutoff: p value cut off ,0.05 by defult
• min_gn: Depending on the expression of a gene, there may be a large difference in the number of samples between the two groups, and if a smaller group of samples is less than 10 percent (default) of all, the gene will be discarded

Returns

a vector with gene names and log_rank p value

Examples

surv_KM(exprSet_hub1,meta1)
surv_KM(exprSet_hub1,meta1,pvalue_cutoff = 1)
surv_KM(exprSet_hub1,meta1,cut.point = TRUE)

See Also

point_cut;surv_cox

Author(s)

Xiaojie Sun