Shift Score

Calculate shift scores and associated permutation test p-values.

ShiftScores(
  tss_table,
  baseline_level,
  calc_pvalue = TRUE,
  nresamp = 100L,
  nthresh = 2,
  check_sort = TRUE
)

Arguments

tss_table	Table of TSSs prepared for shifting score calculation.
baseline_level	The sample being used as the baseline for calculation.
calc_pvalue	Whether p-values should be returned for comparisons.
nresamp	Number of resamplings for permutation test.
nthresh	Minimum number of raw counts required in each TSR for both samples.
check_sort	Check that the input is sorted properly.