Hi Michael, Are you trying to load a GTF custom track? I just tried to load the following sample GTF custom track, which contains quotes in the group field, and it loaded in the browser for me:
browser position chr22:10000000-10025000 browser hide all track name=regulatory description="TeleGene(tm) Genes" visibility=2 chr22 TeleGene exon 10000000 10001000 500 + . gene_id "GeneA.mRNA"; transcript_id "GeneA.mRNA"; exon_number 1 chr22 TeleGene exon 10010000 10010100 900 + . gene_id "GeneA.mRNA"; transcript_id "GeneA.mRNA"; exon_number 2 chr22 TeleGene exon 10020000 10025000 800 + . gene_id "GeneA.mRNA"; transcript_id "GeneA.mRNA"; exon_number 3 For more information on GTF in the browser see: http://genome.ucsc.edu/goldenPath/help/customTrack.html#GTF From that page, please note the following: "The Genome Browser groups together GTF lines that have the same /transcript_id/ value. It only looks at features of type /exon/ and /CDS/." If you are still having problems, please respond to the mail list ([email protected]) with the type of errors you're receiving, and a short example of data that isn't working for you. Katrina Learned UCSC Genome Bioinformatics Group On 9/9/11 9:18 AM, michael stevens wrote: > Hi, > > It seems the gtf parser is broken. Quotes in the group field seem to be > the problem. Could you please check? > > thanks, > michael > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
