Hi all,
Does exist a place where I can easily download a GFF3 file of hg19 human annotations ?
Cheers,
T.
Hi all,
Does exist a place where I can easily download a GFF3 file of hg19 human annotations ?
Cheers,
T.
It should be noted that the files linked in the top answer are Ensembl annotations and the chromosome identifiers have NOT been altered to refer to the UCSC hg19 genome.
You can also get all Ensembl data including gene annotation GTFs (which you can convert to GFF3) from here: http://www.ensembl.org/info/data/ftp/index.html.
Through their BioMart you can customize your search and download e.g. a CVS file.
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Good question. UCSC has always been weirdly hostile to gbrowse: "There is no GFF3 format (yet) for complicated reasons." https://lists.soe.ucsc.edu/pipermail/genome/2009-June/019228.html
Ensembl have GTF (which is GFF 2.5 or something). But I want this too.