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| tools:cifti_surfaces [2025/05/27 11:16] – [Working with surface data using Connectome Workbench] vid79 | tools:cifti_surfaces [2025/06/03 16:45] (current) – [Connectome Workbench Tools] vid79 | ||
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| ===== Types ===== | ===== Types ===== | ||
| - | citfi files have double extentions like '' | ||
| - | ^dscalar|one or more dense maps of scalar values (e.g., myelin maps, curvature maps)| | ||
| - | ^dtseries| one or more dense timeseries datasets (e.g., fMRI timeseries) or other data at equal intervals| | ||
| - | ^dlabel |one or more dense maps of integer values, plus a ‘label table’ that defines each integer (e.g., one or more parcellations of cerebral cortex, subcortical nuclei, or all grayordinates)| | ||
| - | ^pscalar | one or more parcellated scalar maps (e.g., a parcellated thickness map having uniform thickness within each parcel| | ||
| - | ^ptseries | parcellated timeseries| | ||
| - | ^plabel | one or more parcel maps, where each parcel is identified and colored using a label| | ||
| - | ===== Working with surface data in R ===== | + | citfi files have double extentions like '' |
| + | ^ dscalar | one or more dense maps of scalar values (e.g., myelin maps, curvature maps) | | ||
| + | ^ dtseries | one or more dense timeseries datasets (e.g., fMRI timeseries) or other data at equal intervals | | ||
| + | ^ dlabel | one or more dense maps of integer values, plus a ‘label table’ that defines each integer (e.g., one or more parcellations of cerebral cortex, subcortical nuclei, or all grayordinates) | | ||
| + | ^ pscalar | one or more parcellated scalar maps (e.g., a parcellated thickness map having uniform thickness within each parcel | | ||
| + | ^ ptseries | parcellated timeseries | | ||
| + | ^ plabel | one or more parcel maps, where each parcel is identified and colored using a label | | ||
| + | |||
| + | ===== Working with surface data in R ===== | ||
| See Val's tutorial on github [[https:// | See Val's tutorial on github [[https:// | ||
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| ===== Working with surface data using Connectome Workbench ===== | ===== Working with surface data using Connectome Workbench ===== | ||
| - | Connectome | + | Download connectome |
| + | (for ubuntu [[https:// | ||
| - | **Download connectome workbench** using these commands in your terminal | + | < |
| + | # check your release Codename matches | ||
| + | lsb_release | ||
| - | '' | + | # add repo to get neurodebian packages |
| - | sudo apt-key adv --recv-keys --keyserver hkps:// | + | wget -O- http:// |
| - | '' | + | sudo apt-key adv --recv-keys --keyserver hkps:// |
| - | '' | + | |
| + | # install connectome workbench | ||
| + | sudo apt-get update | ||
| + | sudo apt-get install connectome-workbench | ||
| + | </ | ||
| - | ==== wb_view | + | Now you should be able to open files in connectome-workbench with '' |
| - | Connectome '' | + | ====Connectome Workbench Tools==== |
| + | See all of the available workbench commands here [[https:// | ||
| + | |||
| + | < | ||
| + | |||
| + | Run '' | ||
| + | < | ||
| + | |||
| + | |||
| + | |||
| + | https:// | ||
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| + | Connectome '' | ||
| To visualize surface data in workbench, you must load a .surf.gii surface geometry first, and then your surface data. On [[: | To visualize surface data in workbench, you must load a .surf.gii surface geometry first, and then your surface data. On [[: | ||
| - | <WRAP tip>To see your files on a surface: **File > Load** ''/ | + | <WRAP tip> |
| + | |||
| + | To see your files on a surface: **File > Load** ''/ | ||
| + | |||
| + | </WRAP> | ||
| + | |||
| + | wb_view example: | ||
| + | < | ||