Dear all, what is the difference between the hg38 Ensembl GTF file:
(note the .chr. addition in the name)
GRCh38.90.gtf.gz contains everything including unplaced scaffolds. GRCh38.90.chr.gtf.gz contains only the stuff on properly assembled chromosomes.
Thank you Emily, looking at the files, the number of lines is almost identical: 2612848 lines for gtf, 2612134 for .chr.gtf. Also from your answer, you perhaps mistyped and wrote the same name for both files. I assume the .chr.gtf is the one on "properly assembled chromosomes"? Thanks again
Yes, mistyped. Will fix the answer.
800 lines sounds about right. Human doesn't have many unplaced scaffolds.
Login before adding your answer.
Use of this site constitutes acceptance of our User Agreement and Privacy