getCandidateuORFs: Find uORFs from new leader regions
In Roleren/uORFomePipe: uORF prediction in R

getCandidateuORFs

R Documentation

Find uORFs from new leader regions

Description

Step 2 of uORFome pipeline

Usage

getCandidateuORFs(
  folder = regionUORFsFolder,
  startCodons = "ATG|CTG|TTG|GTG|AAG|AGG|ACG|ATC|ATA|ATT",
  stopCodons = "TAA|TAG|TGA",
  BPPARAM = bpparam()
)

Arguments

`folder`	folder to save, default .GlobalEnv arugment: regionUORFsFolder
`startCodons`	default "ATG\|CTG\|TTG\|GTG\|AAG\|AGG\|ACG\|ATC\|ATA\|ATT", set to "ATG\|CTG\|TTG\|GTG" for a more certain set.
`stopCodons`	default "TAA\|TAG\|TGA"