getBackSplicedJunctions {circRNAprofiler} | R Documentation |
The function getBackSplicedJunctions() reads the circRNAs_X.txt with the detected circRNAs, adapts the content and generates a unique data frame with all circRNAs identified by each circRNA detection tool and the occurrences found in each sample (named as reported in the column label in experiment.txt).
getBackSplicedJunctions(gtf, pathToExperiment = NULL)
gtf |
A data frame containing the annotation information. It can be
generated with |
pathToExperiment |
A string containing the path to the experiment.txt file. The file experiment.txt contains the experiment design information. It must have at least 3 columns with headers:
By default pathToExperiment is set to NULL and the file it is searched in the working directory. If experiment.txt is located in a different directory then the path needs to be specified. |
A data frame.
backSplicedJunctions
for a description of the data frame
containing back-spliced junctions coordinates.
check <- checkProjectFolder() if(check == 0){ # Create gtf object gtf <- formatGTF(pathToGTF) # Read and adapt detected circRNAs backSplicedJunctions<- getBackSplicedJunctions(gtf)}