BCI-DNI_brain_atlas: how2 Save & Retrieve different views

Forums Forums Installation and Setup BCI-DNI_brain_atlas: how2 Save & Retrieve different views

This topic contains 4 replies, has 3 voices, and was last updated by  DanM 3 months, 1 week ago.

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  • #1255

    DanM
    Participant

    How can I save the following atlas setup so I don’t have to do it every time I want to see it and/or define different ‘models’ to view?

    On a computer running Windows 8.1, I’ve downloaded BrainSuite 18a, and per sychoi’s instructions dragged & dropped onto BrainSuite files ending in :
    .bfc.nii.gz (or BCI-DNI_brain.nii.gz for inclusion of skull and scalp)
    .left.mid.cortex.dfs
    .right.mid.cortex.dfs
    .all.dfc (right and left will only load one at a time)
    and under File–>open–>label volume
    selected the “BCI-DNI_brain.label.nii.gz” file

    Thanks in advance for any help.

    • This topic was modified 3 months, 2 weeks ago by  DanM.
    • This topic was modified 3 months, 2 weeks ago by  DanM.
  • #1281

    Anand Joshi
    Moderator

    I am not sure what do you mean by saving the atlas setup. Can you please describe what you want to do? If you mean that you want to load a set of files each time you open brainsuite, you can try dragging and dropping all the files at once to see if they load.

  • #1282

    DanM
    Participant

    Thank you Anand, what I’d like to be able to do would be either:
    1. set up BrainSuite in some way so that when I activate it, a pre-set bunch of atlas files would automatically come up at the same time, &/or,
    2. know how to save ‘something’ (a ‘volume’, a ‘surface’? an atlas?) that contains all of a set of desired atlas files with a unique name, which could be simply selected as a named item from one of the BS menus to bring all of those files up (and have multiple different such named setups).

    I did try to load a whole directory with some of the atlas file into BS by dragging the directory itself, which didn’t work, but I can select all those files in a directory together and then drag them together, and that works.

    I hope to be able to be able to select from within BS, by user specified names, different presentations of different atlases, such that one named selection might show both hemispheres, another show just one hemisphere, another with different than originally colored regions, or non-differently colored for self-test of recognition, and if interior sub-cortical structures are available, another show that one, at user selection from within BS.

    I could set up different directories with different sets of files to manually drag together, which is doable but not wonderful, but I don’t know how to ‘reset’ or ‘unload’ existing ones to allow to load other different ones.

    Thank you again for your reply.

  • #1290

    sychoi
    Participant

    you can create a .bst file that you can drag and drop onto brainsuite and will load a specified set of files.
    instructions found here: http://brainsuite.org/formats/formatsbst/

  • #1295

    DanM
    Participant

    That looks perfect! Thank you Sychoi!

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