Command line for ORFfinder
./ORFfinder -in circRNAs.fasta -s 0 -strand plus -out ORFfinder_output.txt

Command line for circPrimer2.0
java -jar circPrimer2.0.jar ORF 75 circRNAs.fasta circPrimer_output.txt

"Filter ORFs.py" written in python used to filter the ORFs for ORFfinder and circPrimer 2.0. 

"Compare circPrimer and ORFfinder.R" written in R used to compare the rest ORFs.
