Steven Roberts
Steven Roberts
I think @kubu4 is on base with gtf idea. I think another way to frame issue is: I have this count matrix file from hisat/ deseq output file but I...
Somebody double check- but looks like your alignment count matrix IDs correspond to - augustus.hints.codingseq So these annotations would work… But another question is - is this hisat out put...
the suspense is killing me - where do things stand on this?
If there were only a set a side time of the week where science could be discussed to go over this.. maybe it could be an hour or more...
@grace-ac > But another question is - is this hisat out put based on genes or transcript level?
Lets start workflow with gene level analysis.
still running? does an issue persist?
Are all sequences from blast ending in `.t1`?
@grace-ac can you drop in a url to a - genome file - gff file - gtf - directory with trimmed reads for any one of your species
@grace-ac ?