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 = file.path(libFolder(df), "pshifted", "shifting_table.rds")
)

Arguments

df	an ORFik experiment
path	path, default file.path(libFolder(df), "pshifted", "shifting_table.rds"). 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(), shifts_save()

Examples

df <- ORFik.template.experiment()
# subset on Ribo-seq
df <- df[df$libtype == "RFP",][1,]
#shiftFootprintsByExperiment(df)
#shifts_load(df)

Roleren/ORFik documentation built on Dec. 18, 2024, 11:39 p.m.