makeORFPredictionData: Predict table for uORFs
In Roleren/uORFomePipe: uORF prediction in R

makeORFPredictionData

R Documentation

Predict table for uORFs

Description

Get ribo-seq features for uORFs Will only load if it already exists

Usage

makeORFPredictionData(
  tissues = "combined",
  mode = "uORF",
  features = c("countRFP", "disengagementScores", "entropyRFP", "floss", "fpkmRFP",
    "ioScore", "ORFScores", "RRS", "RSS", "startCodonCoverage", "startRegionCoverage",
    "startRegionRelative")
)

Arguments

`tissues`	Tissue to train on, use "combined" if you want all in one, first run of training it is a ORFik experiment.
`mode`	character, default: "uORF". alternative "aCDS". Do you want to predict on uORFs or artificial CDS. if "aCDS" will run twice once for whole length CDS and one for truncated CDS to validate model works for short ORFs. "CDS" is option to predict on whole CDS.
`features`	features to train model on, any of the features created during ORFik::computeFeatures, default: `c("countRFP", "disengagementScores", "entropyRFP", "floss", "fpkmRFP","ioScore", "ORFScores", "RRS", "RSS", "startCodonCoverage", "startRegionCoverage","startRegionRelative")`