importCircMarker {circRNAprofiler} | R Documentation |
The function importCircMarker is specifically designed to read and adapt the CircMarker (July.24.2018) output file (Brief_sum.txt). See https://github.com/lxwgcool/CircMarker for more details.
importCircMarker(pathToFile, gtf)
pathToFile |
A character string specifying the path to the file containing the detected circRNAs. |
gtf |
A data frame containing the formatted GTF file. This is generated
with |
A data frame.
# Load short version of the gencode v19 annotation file data("gtf") # Path to an example file containing circRNA detected by CircMarker pathToFile <- system.file("extdata", "circmarker/circRNAs_001.txt", package="circRNAprofiler") # Inner function. # Import circRNAs. # Due to the short version of the gtf file gene names might miss in the # returned output. importCircMarker(pathToFile, gtf)