Convert CSV files to be loadable as Fiducials or as Sequence of Fiducials (JSON)

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In recent Slicer Preview Releases, you can use the table import feature in Markups module.

All you need to do is to create a valid csv file from this, by adding a header. If the coordinates are in LPS coordinate system then add l,p,s as column names, if the coordinates are in RAS then use r,a,s. For example:

r, a, s
0.020008288323879242,0.020008288323879242,0.020008288323879242
-5.5104074478149405,21.592485427856445,11.360527992248535
-3.809137344360352,20.855607986450195,11.380624771118164
-2.173929452896118,20.26450729370117,11.737421989440916
-0.4237257242202759,19.472154617309567,12.046059608459473
1.1728017330169676,18.723459243774414,12.897193908691408
3.3027710914611816,19.262800216674805,13.48173522949219
5.7919020652771,22.181146621704098,11.295902252197264
7.3409905433654785,19.74334526062012,6.751131057739258
5.514996528625488,17.492221832275387,5.892641067504882

You can then save this file as .csv and use it as control point coordinates in Slicer:

  • drag-and-drop the .csv file on the Slicer application window and click “Apply” to load it as a table
  • go to Markups module
  • create a markup node (fiducial list, curve, …)
  • in “Export/import table” section choose “Import” and select the input table
  • click “Import”

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There are a couple of more columns that you can add, such as point labels or selected state. See a complete list here.

If you want to import a markup directly from a file and/or specify markup display properties (colors, opacities, glyph size, …) then you can create a .mrk.json file. See more information here.