CIFTI and wb_view

[Stevens, Michael]

Hi everyone,

 

Can folks point me to the best manual/resource that I can delve a bit more deeply into the guts and working capabilities of wb_view?  Essentially, what I’m asking is a source of information to guide me through how to use the more powerful features of wb_view to create more meaningful scenes. 

 

For instance, I commonly use Tile Tabs and multi-panel displays of simple statistical maps.  But I’d like to start exploring the “Chart” function… I’ve got a large dataset where I’d like to plot what boils down to an event-related average of brain activation values from the whole sample, on three different days they were assessed.  Technically, it’s not a timecourse of activity, it’s values across several hours… But it’s more-or-less just a series of numbers like a timeseries.  I figure if I had access to the right manual for wb_view that explains how various CIFTI data features can be loaded and displayed in the Chart function the right way, perhaps I could show those three different ‘averages’ as differently-colored lines superimposed on each other?  I realize I’m also gonna have to extend my understanding of how to create more complex CIFTI file structures than I currently do.  (I usually just cheat and copy known CIFTI structures I have on hand that are examples of what I need, then just replace the data inside them… So I gotta up my game here to learn how to create novel CIFTI structures that I need.)

 

Rather than ask a whole lot of clumsy questions piecemeal here however, I thought it best to just ask what sort of education/training resources might exist for someone like me to read up on wb_view and see what I can teach myself.

 

Thanks,

Mike

 

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[Glasser, Matthew]

Perhaps Jenn has thoughts, but we are about to do a new release next week which will include many changes.

 

Matt.

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[Coalson, Timothy Scott (S&T-Student)]

With the three averages in different files, you can load them as separate "layers" in a line chart (if they aren't spatial maps, the "sdseries" cifti subtype could be useful).  You will need to ensure that the files have the event at the same "elapsed time" to get them to overlap properly.  The new cifti-matlab v2 toolbox gives you control over the internals of the cifti XML as just a struct, and there are some helpers to start from existing files, or to make an sdseries from scratch.  wb_command -cifti-change-mapping and -cifti-merge are also able to do a fair amount of modification to cifti files.

If you haven't read the CIFTI-2 specification yet (https://www.nitrc.org/forum/forum.php?thread_id=4380&forum_id=1955 , and maybe look at the examples in appendix D in https://www.nitrc.org/forum/forum.php?thread_id=4381&forum_id=1955), it may be helpful in order to understand the concepts and capabilities of the format, so you can figure out what you want to do, and then figure out what tools can help do it.

We haven't documented all of the features in wb_view, but the tutorial covers a broad range, and there is also the help menu.  There are also the HCP course materials, but I think the wb_view portion is an abridged form of the tutorial.

Tim

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From: Stevens, Michael <Michael...@hhchealth.org>
Sent: Friday, January 29, 2021 5:22 PM

To: hcp-...@humanconnectome.org <hcp-...@humanconnectome.org>
Subject: [hcp-users] CIFTI and wb_view

 

Hi everyone,

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