Dear all,
we would like to add some entries to the wiki track, but I have some
trouble and questions about it.
* First, is there a possibility to test this feature before publishing?
I am not sure, whether I've understood everything right, especially I
would like to see, how annotations look when entered. Fortunately, I
found by chance some annotations in the genome wiki by searching for
"GenomeAnnotation", so I could try them a bit, maybe there should be
some hint about that possibility.
Trying out these annotations, I found some bugs:
1) First, if I click on an annotation in the genome browser image, it
takes me to a page in the wiki, that does not exist, because the link
has appended: " TARGET= blank, obviously some syntax error in the code.
2) Second, when I clicked at a genome wiki page on the link to the
genome browser, sometimes there were trouble with the genome version
that not always had been sent as a CGI-GET-Variable db, leading to a
wrong genome, but I cannot really reproduce that second bug.
* Second, the wiki track is not shown at all, if I am not logged in to
the genome wiki. I think, it should be possible to see annotations, even
if not logged in, but this is, of course, only a proposal for an
improvement.
* Third, I have all my annotation data already as a BED file, that I
could upload as a custom track. Can BED or GFF files be uploaded to the
Wiki track directly to open them for the community, or must I re-enter
all the data via the web front end? In that case, I would suggest to
implement some batch upload feature, because tracks usually are
generated as custom tracks, I think, and maybe shared via wiki later.
I know of the possibility of sharing BED files as described on
http://genome.cse.ucsc.edu/goldenPath/help/hgTracksHelp.html under the
headline "Sharing Your Annotation Track with Others", but we would like
to have a wiki entry because it easily can be updated by collegues.
We are extremely interested in these features, and like to demonstrate
how useful a wiki track is. I hope, you can help us a bit in doing so,
and I wonder, whether the issues has the same high priority for you.
Thank you very much for the great genome browser and many greetings from
Germany.
Merry pentacost,
Stephan Struckmann
--
Stephan Struckmann <[email protected]>
IBIMA Universitätsklinikum Rostock
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