Closed pynie1 closed 4 years ago
Did you sort the BAM file? If you did not then this behaviour is expected. Also, the results will be wrong.
Yes, I sorted the BAM file.
If you sort the BAM file, then the GFF records will always be in the same order, hence the output should be the same. Please use the snakemake pipeline to avoid potential glitches.
Hi, I have a fasta file that contains some full length sequences.When I adjusted the order of full sequences in the file. I got the different clusters.tsv file.The command line as follow: spliced_bam2gff -s -M CON1.sorted.bam > CON1.raw_transcripts.gff cluster_gff -c 10 -a CON1.clusters.tsv CON1.raw_transcripts.gff > CON1.clustered_transcripts.gff
I don't know why and I need your help.Could you help me? If you need my test file, I can provide.