Hi Keith,
Are you using a full BED12 file? Or just a BED3-6? Full BED12 should
return the available features:
3. feature - The name of this type of feature. Some examples of standard
feature types are "CDS", "start_codon", "stop_codon", and "exon".
If you would like to share a history, that would help if this is not
enough information ("Options -> Share or Publish). You can send the link
to me directly.
Best,
Jen
Galaxy team
On 4/7/11 10:46 AM, Keith Giles wrote:
I am trying to use the galaxy "BED to GFF" function. The operation
worked, but instead of giving me back any feature information (e.g.,
exon, intron, repeat, etc.); I just received back the sequence of the
interval contained within the BED file. Does anyone know what I'm doing
wrong? Moreover, does anyone know the best way to map each read of a
RNAseq run to a given feature?
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Jennifer Jackson
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http://galaxyproject.org
___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org. Please keep all replies on the list by
using "reply all" in your mail client. For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists,
please use the interface at:
http://lists.bx.psu.edu/
