Software Open Access

Locating human splenic capillary sheaths in virtual reality - Supplementary material

Lobachev, Oleg; Steiniger, Birte S.; Berthold, Moritz

If you have a modern browser, you should be able to view the Videos and Tables online by clicking a link in the paper. The Supplementary Files need to be downloaded and unpacked completely beforehand. A modern graphics card is required for the interactive visualisation and for virtual reality application, it runs on Windows only. For other operating systems or if the application does not run, please install MeshLab to view the reconstruction. Press F1 in the interactive visualisation for help.

Files:

  • Files File_S1.zip - File_S11.zip (for regions R1 - R11), File_S12.zip - File_S15.zip (for Figs. 4b,d, 5a,b) contain data sets for interactive visualisation. Download such a data set and extract the files from the zip file. On Windows: click on start.bat. The application launches automatically. If an eventual warning about an unsigned batch file appears, please allow the execution. The application will use a VR headset if present. A VR headset is not required, but recommended. See below or press F1 for short usage instructions.
  • Files Table_S1.* and Table_S2.* provide supplementary tables to the text in various formats. Table S1 shows number and percentage of green and blue capillary sheaths. Table S2 lists iso-values used for different regions.
  • Files Video_S1.mov - Video_S3.mov show a visualisation of data sets R1 to R3 as a video.
  • File Video_S4.mov shows an interactive visualisation of region R1 and quality control in VR perspective as video.
  • Files Video_S[1-4]_small.mov are smaller versions of above videos with reduced quality and size.

Abbreviations:

f: follicle; t: trabecula; tv: trabecular vein; v: vein.

Usage of interactive data sets:

  • The file "start.bat" in the unpacked data from the zip file of a data set (file_sXX.zip) launches the application.
    • On a Mac or Linux use MeshLab to open mesh.ply in the data set. The text below assumes you use our viewer (start.bat).
    • If you have a functional graphics card, a window will appear with the interactive reconstruction display.
    • If you also happen to have a HTC Vive VR headset  connected, the same data set is also displayed in the headset.
    • We recommend to use VR immersion if possible.
    • Any other Steam VR-compatible headset (such as Oculus Rift) should work, too.
  • In VR:
    • The motion of the user is used for navigation.
    • The red controller can be used to:
      • blend in the original sections (menu button),
      • page through them (top and bottom of the touchpad),
      • blend out the reconstructions (trigger).
    • The other controller (green) carries a ball that is used for annotations and further data analytics in the full version. The touchpad on the green controller changes the colour of the ball.
  • Outside VR:
    • F1 for help
    • F2 for an overview with annotations
    •  use WSAD to navigate,
    • CV to move up/down,
    • mouse drag to turn,
    • + and - on the keypad to zoom,
    • I ("i" key) to turn the sections on and off,
    • JK to move sections,
    • E to blend the reconstruction out.
    • ESC quits.
  • The VR Viewer application (bundled with the data sets) is licensed under the Unlicense, in other words it is in public domain. Please contact Moritz Berthold or Oleg Lobachev for a full version.

Main text:

These data are meant to supplement our paper "Locating human splenic capillary sheaths in virtual reality"Scientific Reports, volume 8, Article 15720 (2018).

Files (3.7 GB)
Name Size
File_S1.zip
md5:a1c2bdef17a16fdb42f6034f8086ac51
277.5 MB Download
File_S10.zip
md5:9d9f68263d324c5e8feb28063aad5073
290.7 MB Download
File_S11.zip
md5:a7651c25ea5de3e40a6c0697ca16004c
297.4 MB Download
File_S12.zip
md5:8089c4d0c065cefd07c6e6f6035f3799
8.3 MB Download
File_S13.zip
md5:21cbc72059b8240771383d708ed186d4
7.0 MB Download
File_S14.zip
md5:a7e18682b418bf1e83fc4a966549db88
12.7 MB Download
File_S15.zip
md5:4ba243ae885c00b7a4dca860adaa7a86
9.3 MB Download
File_S2.zip
md5:a56a09f5adfa50956f4e5ac2936be5b9
245.4 MB Download
File_S3.zip
md5:56c88f5359000e168e8b1812ad32f568
257.6 MB Download
File_S4.zip
md5:56b811ed5923cb8f20205b6ce51f1955
301.4 MB Download
File_S5.zip
md5:b77a132d4ad02a8cf049c67d827829d0
298.0 MB Download
File_S6.zip
md5:08157bd7b26042a980d8a8b14b3676f1
269.6 MB Download
File_S7.zip
md5:fa84a5976017c99b589fa3d836ce2a6c
271.3 MB Download
File_S8.zip
md5:dcc0e2c877be6f89434e1c870f55c610
256.0 MB Download
File_S9.zip
md5:9a7b91669ea0b20ad84ba7cb1dc11730
284.5 MB Download
table_S1.pdf
md5:1bf455d2abaac42161521aa975e19de8
19.5 kB Download
table_S1.xlsx
md5:80a72813e7e3a218212d6b068c361def
502.5 kB Download
table_S2.pdf
md5:89bc46f2aee99bd0c96a5c93589bb0e0
26.2 kB Download
table_S2.xlsx
md5:838f96b837bc069baffdacb00dfded92
499.6 kB Download
Video_S1.mov
md5:0a46a9a8df195023a381106fb7cf0919
194.8 MB Download
Video_S1_small.mov
md5:af9cac091280389f991dc3f8eed710f1
22.2 MB Download
Video_S2.mov
md5:d5b5a0d51636c9a7f5bb7dd877efcd2d
172.6 MB Download
Video_S2_small.mov
md5:ec1375de4e4f3096629e6a9faf9e0599
21.5 MB Download
Video_S3.mov
md5:314984224d6a89a1a0f14e4f39f9d105
156.2 MB Download
Video_S3_small.mov
md5:e6f2c7ff11124bc8522b93d5157cbbfc
21.4 MB Download
Video_S4.mov
md5:573d8936d09356ed84e8347a55bea62b
36.5 MB Download
Video_S4_small.mov
md5:024082dd6a1d5fccb2046021a39503fd
4.6 MB Download
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