Entering edit mode
9.3 years ago
tszn1984
▴
100
I want to convert the gtf file (gencode gencode.v19.chr_patch_hapl_scaff.annotation.gtf.gz
) to genepred format. However, by using the UCSC gtfToGenepred executable, I had errors like this:
gunzip -c gencode.v19.chr_patch_hapl_scaff.annotation.gtf.gz |gtfToGenePred stdin test2.gpd
no exons defined for group ENSG00000223972.4, feature gene (perhaps try -ignoreGroupsWithoutExons)
I tried -ignoreGroupsWithoutExons
. It worked but missed genes like -ignoreGroupsWithoutExons
. Is there any general solution for this?
Thanks
Were you ever able to find a solution for this issue?