shifts.load: Load the shifts from experiment

In Roleren/ORFik: Open Reading Frames in Genomics

Load the shifts from experiment

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.

See Also

Other pshifting: changePointAnalysis(), detectRibosomeShifts(), shiftFootprints(), shiftFootprintsByExperiment(), shiftPlots()

Examples

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

Roleren/ORFik documentation built on April 25, 2024, 8:41 p.m.