Last year, at a GMOD workshop, I described to Suzanna Lewis how useful
it would be if an external program could drive a running instance of the
Apollo browser by sending it signals to display a specified region of
the genome and possibly even to accept simple editing commands.
For example, the external program might generate a list of interesting
sites that a user should examine and annotate. It could send a command
to the already running Apollo browser to display the required region,
the user could then work on that region for a while and then the
external program could send a signal to Apollo to display the next
region. We make great use use a system like this when curating problem
regions in the C. elegans genome using the ACeDB gene structure editor
'FMAP'. The FMAP editor is driven by our external program, "the Curation
Tool GUI" to display the problem regions of the genome and to
automatically perform simple gene structure editing operations.
Note that this is not the same as running the Apollo or FMAP editor with
a command-line option to display a region. There is one instance of the
editor running that accepts several commands asynchronously from the
driving program.
Does anyone know if any work has yet been done on Apollo to implement
something like this?
Thanks,
Gary Williams
---------------------------------
WormBase Group UK
Room N312
Morgan Building
The Sanger Institute
Wellcome Trust Genome Campus
Hinxton
Cambridgeshire
CB1 1HH
U.K.
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