shiftPlots {ORFik} | R Documentation |
A good validation for you p-shifting, to see shifts are corresponding and close to the CDS TIS.
shiftPlots( df, output = NULL, title = "Ribo-seq", scoring = "transcriptNormalized", addFracPlot = TRUE, BPPARAM = bpparam() )
df |
an ORFik |
output |
name to save file, full path. (Default NULL) No saving. |
title |
Title for top of plot, default "Ribo-seq". A more informative name could be "Ribo-seq zebrafish Chew et al. 2013" |
scoring |
which scoring scheme to use for heatmap, default "transcriptNormalized". Some alternatives: "sum", "zscore". |
addFracPlot |
logical, default TRUE, add positional sum plot on top per heatmap. |
BPPARAM |
how many cores/threads to use? default: bpparam() |
a ggplot2 grob object
df <- ORFik.template.experiment() df <- df[3,] #lets only p-shift RFP sample at index 3 #shiftFootprintsByExperiment(df, output_format = "bedo) #shiftPlots(df, title = "Ribo-seq Human ORFik et al. 2020")