Post Reply 
 
Thread Rating:
  • 0 Votes - 0 Average
  • 1
  • 2
  • 3
  • 4
  • 5
gff files in kmer analysis.
06-Nov-2017, 12:50 PM
Post: #2
RE: gff files in kmer analysis.
Hello Shao,
we have not tried running kmer on mouse data ourselves. Anyhow the necessary gff file is not available on RiboGalaxy. So you will need to retrieve and upload the gff file yourself. An important recommendation mentioned in another post on this forum is that the genome fasta file and the gff file need to be from the same source and need to refer to the chomosome sequences in the same format . Unfortunately this requirement is not always met for different species from the same library and it is therefore difficult to give a definitive answer. The best advice we can give is to try using files from either Ensembl or NCBI and see what is the outcome.
Thanks to let us know what happens if you try this.

Regards
James
Find all posts by this user
Quote this message in a reply
Post Reply 


Messages In This Thread
gff files in kmer analysis. - shao - 06-Nov-2017, 10:04 AM
RE: gff files in kmer analysis. - jamesp - 06-Nov-2017 12:50 PM
RE: gff files in kmer analysis. - shao - 06-Nov-2017, 04:05 PM
RE: gff files in kmer analysis. - shao - 07-Nov-2017, 12:52 PM

Forum Jump:


User(s) browsing this thread: 1 Guest(s)

GWIPS-viz | Return to Top | Return to Content | Light (Archive) Mode | RSS Syndication