leleory
leleory
Hi @KatharinaHoff, Has any development be made on the UTR prediction in Braker or is this development still on hold? If not, can you recommend any other tools to add...
Great news, thank you! I will give it a try . Do I need to run BRAKER from the beginning or can I start with the braker.gtf? As I am...
It worked! I run BRAKER with GUSHR with the softmasked genome, bam files, the augustus.hints.gtf file and the --addUTR=on parameter. There were no errors and the run finished with two...
When I try to convert the gushr.gtf file into genepred I got the following error: gtfToGenePred gushr.gtf gushr.genepred gushr.gtf doesn't appear to be a GTF file (GFF not supported by...
One more formatting comment for the gushr_test.gff file. The gene/transcript/UTR feature lines frequently have SPACE followed by TAB as field delimiters, instead of the expected single TAB character around positions...
Thank you Katharina! It is really good that the software works and adds the UTRs. @francicco Solving the small issues with the GTF is just now text processing. Converting the...
As your indicate this is also a problem with quiver. Your suggestion would be a useful hack. Unfortunately I do not have either unzip.py or run_quiver.py in my version what...
Thanks for the suggestion, @jltsiren. Unfortunately, this is not a problem with not enough temporary storage. There is 6TB storage available for vg and the maximum it is using before...
What is the best way to share it? The gbz file is 9.3GB.
If you can give me an e-mail address I can send you a link, if that is OK.