shifts.load: Load the shifts from experiment

In ORFik: Open Reading Frames in Genomics

Description

When you p-shift using the function shiftFootprintsByExperiment, you will get a list of shifts per library. To automatically load them, you can use this function. Defaults to loading pshifts, if you made a-sites or e-sites, change the path argument to ashifted/eshifted folder instead.

Usage

shifts.load(
  df,
  path = pasteDir(dirname(df$filepath[1]), "/pshifted/shifting_table.rds")
)

Arguments

df	an ORFik experiment
path	path to .rds file containing the shifts as a list, one list element per shifted bam file.

Value

a list of the shifts, one list element per shifted bam file.

Examples

df <- ORFik.template.experiment()
# subset on Ribo-seq
df <- df[df$libtype == "RFP",]
#shiftFootprintsByExperiment(df)
#shifts.load(df)

ORFik documentation built on March 27, 2021, 6 p.m.