ORsurv: survival of patients using ors on TCGA data

In krishan57gupta/ORsurv: Survival of patients using ors on TCGA data

Description

survival of patients using ors on TCGA data

Usage

ORsurv(
  folder,
  matrix_1,
  matrix_2,
  matrix_3,
  t1 = -3,
  t2 = 3,
  t3 = 3,
  name1 = "EXP",
  name2 = "EXP_TCGA",
  name3 = "Survival_plot",
  survival_info,
  method,
  month_limit,
  p_limit = 2,
  selected_label
)

Arguments

folder	dir name to save pdf files
matrix_1	zfpkm single sell matrix
matrix_2	tpm single cell matrix, same samples as in matrix_1
matrix_3	tpm bulk TCGA matrix
t1	cutoff for 0 and 1
t2	number of clusters on bianry matrix of single cell zfpkm
t3	number of clusters on projected matrix of single cells and bulk cells
name1	for binary matrix
name2	for projected matrix plots
name3	for survival plots
survival_info	for survival info
method	for pair-wise similarity method name
month_limit	keeping survival info till specfic months, means number of months
p_limit	therosld to selecte clusters where pair-wise p val is less
selected_label	to pass already known cluster names out of all clusters

Value

surv_plot pValues A vector containing FDR adjusted p significance values

krishan57gupta/ORsurv documentation built on Dec. 29, 2019, 4:56 p.m.