I am running for long non-coding RNAs analysis using a FEELnc software (on human data). I found my candidate LncRNAs (first step) and now am running the second step using the coding potentials) using FEELnc_codpot.pl.
My code is as below: Is my code correct for this step? How long this step takes time, s I have been running it for 24 hours and it still is not finished.
FEELnc_codpot.pl -i ~/RNASeqData/FEELnc/Result/candidate_lncRNA.gtf -a ~/RNASeqData/FEELnc/Result/feelncCodingPot_1/genome.gtf -g ~/RNASeqData/FEELnc/feelncCodingPot_1/genome.fa -b transcript_biotype=protein_coding --mode=shuffle
Appreciate your comments and help, SN