View Modes

under construction

IGB will have the ability to display features using different methods called View Modes.
Each View Mode will only be appropriate to certain feature types. (@ indicates an existing mode)

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-Ann
=======
Michael and I had a long talk about this yesterday (the various ways that the user
can view/modify the data) and we thought we should go over this with the group at
some point.

Some points to consider:

• the view modes can do two things, one is just redisplay the track differently, the
  other is to show the new view mode in a new track, like the
  Make Annotation Depth Graph menu item.
• the user can make some pretty complicated operations on the data. We could have
  a panel the graphically displays how the track was created. The user could even
  click on one of the intermediate steps to see that data in a new track. For example:

abc.bed
\
(merge) - * - (not) - * - (depth) - *
/ \
def.bed \
(ratio) - mygraph.wig
uvw.bedgraph /
\ /
(median) - * -
/
xyz.wig

where * is an intermediate file (yes, no one would do this in real life).

• we want them to be able to be efficient, that is, to operate on a small zoomed in region
  (if possible) rather than have to process the entire chromosome every time.

Lance
=======

Thinking about this some more, the current approach makes sense for now. A view mode is at some level at "template" for a plot. The template will include things like: the geometric primitive that is drawn, and the scales from the data to the visual attributes of those primitives. Plots also often have a "statistical computation" associated with them, e.g., with histograms.

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