Question: Create Gtf Or Gff3 File From Draft Genome
0
Bernardo Bello • 40 wrote:
Hello Galaxy community,
I recently entered in RNA-Seq world, Im a second year PhD.
We have recently sequenced a bacterial transcriptome. I would like to
create the GTF or GFF3 file from the bacterial genome in order to add
it to
Cufflinks. The draft genome is still unpublished. We have run the
PGAAP
[URL="http://www.ncbi.nlm.nih.gov/genomes/static/Pipeline.html"]
http://www.ncbi.nlm.nih.gov/genomes/static/Pipeline.html[/URL]
pipeline to
annotate it, but PGAAP do not gives GTF or GFF3 file. Instead, PGAAP
gives
you GenBank File. If someone could advise me how to do it I will be
very
grateful. Maybe Artemis can do it.
Last, say that I'm a biologist, so I need GUI to work, no programming
experience, sorry.
Thank you very much, Bernardo
--
*Bernardo Bello Ortí*
Becario predoctoral FPI
CReSA-IRTA
Campus de Bellaterra-Universitat Autňnoma de Barcelona
Edifici CReSA
08193 Bellaterra (Barcelona)
Tel.: 647 42 52 63 *www.cresa.es *
*
*