Create general "highlight"/"marker" indicators

[cmdcolin]

The idea of a generic "highlight" that can span a region of the view would be useful to have, that could be similar to jbrowse 1 (interactive, draw a single region) or multiple (could come from a data store such as the peaks similar to https://github.com/cmdcolin/wigglehighlighter)

Could be track specific and/or view specific

The idea of a single bp "flag" to represent the breakpoints in the BreakpointSplitView was also discussed

[cmdcolin]

If the "highlights" come from a datasource, it could possibly be like a track that could be turned on and off

[rbuels]

How about having a highlight attr on the session model that can contain either a feature, or a region object (assembly, ref, start, end), or something else, and all views would draw a highlight in their view if that thing is set and if they understand what it is?

And add some UI in the LGV and at some point in the other views to set the highlight

[cmdcolin]

not to be too prodding, but why is this topic coming up currently?

[rbuels]

@teresam856 and I just happened to talk about it in pairing just now

[cmdcolin]

it can just help to have a specific context or application in mind to refer to when rebooting a discussion

in this example above, if it is a highlight attr on session model, it is a little unclear how that would work with a data adapter like what i put in my original PR, and may even be a little bit tricky (if it is a data adapter, probably dont want it to appear in snapshots), but possibly that could be "separate" and more like a bookmark thing, though they could share some similarity with highlighting (note, jbrowse 1 has a "bookmarks concept" that basically represents multiple highlights that can fetch from remote files, or the url bar, or the config https://jbrowse.org/docs/url_strings.html#addbookmarks)

[bbimber]

I put some comments in #2316 on our usage, but the feature to highlight a region by coordinates is something we used a lot of JB1 that would be great to have in JB2

[scottcain]

Ha, I just did the same as @bbimber , adding a comment on #2316 because I need a more general highlight functionality too.

[cmdcolin]

some interest from twitter here :) https://twitter.com/gregor_rot/status/1593540025001574403

[grexor]

Great work on JBrowse everyone, yes the general highlight feature (already present in JBrowse 1) also for version 2 would be great in my opinion, please direct me in case I can help with development, thank you!

[carolinebridge]

@cmdcolin is there anything left on this ticket to extract/do or can we close?

[cmdcolin]

I think it is probably close-able. if there are any sort of follow up discussions can get new thread :) nice work @carolinebridge-oicr