Skip to contents

compute phi for exons in a gene from a Splice object

Usage

geneSitesPhi_from_psi(
  spliceOb,
  gene,
  cells = "all",
  cell_count_thresh = 30,
  exprs_thresh = 10,
  iters = 100,
  ...
)

Arguments

spliceOb

the Splice object

gene

name of the target gene

cells

cells to use in building exon count table

cell_count_thresh

the minimum number of cells expressing this gene

exprs_thresh

the minimum gene expression to calculate the exon psi (for unbiased estimation)

iters

iteration for bootstrap to generate the confidence interval of phi

...

Other parameters for geneSitesPsi.base

Value

a dataframe recording the phi estimation