EMPIAR-11055
Crosshair, semi-automated targeting for electron microscopy with a motorised ultramicrotome [multiple data sets in TIFF and PNG formats]
Publication:

Crosshair, semi-automated targeting for electron microscopy with a motorised ultramicrotome

Meechan K, Guan W, Riedinger A, Stankova V, Yoshimura A, Pipitone R, Milberger A, Schaar H, Romero-Brey I, Templin R, Peddie C J, Schieber N L, Jones M L, Collinson L, Schwab Y

BioRxiv (2022)

Related EMDB entry:
Deposited:
2022-05-09
Released:
2022-06-01
Last modified:
2022-06-01
Imageset size:
150.97 GB
Imageset DOI:
Experimental metadata:
Download xml json
Contains:
  • reconstructed volumes
1. sample_a_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(1000, 660)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample a before targeting (ready for crosshair)
Files:
Loading...
2. sample_a_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(738, 870)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample a after targeting (ready for accuracy measures)
Files:
Loading...
3. Raw sample a micro-CT - before reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
939
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample a micro-CT (before reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
4. Raw sample a micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
479
Image size:
(2016, 2016)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Raw sample a micro-CT (after reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
5. Raw sample a micro-CT - before reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1799
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample a micro-CT (before reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
6. Raw sample a micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
465
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample a micro-CT (after reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
7. sample_b_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(1046, 688)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample b before targeting (ready for crosshair)
Files:
Loading...
8. sample_b_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(1224, 774)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample b after targeting (ready for accuracy measures)
Files:
Loading...
9. Raw sample b micro-CT - before reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1799
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample b micro-CT (before reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
10. Raw sample b micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
441
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample b micro-CT (after reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
11. Raw sample b micro-CT - before reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1799
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample b micro-CT (before reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
12. Raw sample b micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
559
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample b micro-CT (after reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
13. sample_c_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(838, 568)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample c before targeting (ready for crosshair)
Files:
Loading...
14. sample_c_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(663, 867)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample c after targeting (ready for accuracy measures)
Files:
Loading...
15. Raw sample c micro-CT - before reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1799
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample c micro-CT (before reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
16. Raw sample c micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
462
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample c micro-CT (after reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
17. Raw sample c micro-CT - before reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1799
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample c micro-CT (before reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
18. Raw sample c micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
430
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample c micro-CT (after reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
19. sample_d_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(894, 576)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample d before targeting (ready for crosshair)
Files:
Loading...
20. sample_d_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(939, 762)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample d after targeting (ready for accuracy measures)
Files:
Loading...
21. Raw sample d micro-CT - before reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1799
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample d micro-CT (before reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
22. Raw sample d micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
519
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample d micro-CT (after reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
23. Raw sample d micro-CT - before reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1799
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample d micro-CT (before reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
24. Raw sample d micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
459
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample d micro-CT (after reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
25. sample_e_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(770, 706)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample e before targeting (ready for crosshair)
Files:
Loading...
26. sample_e_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(807, 846)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample e after targeting (ready for accuracy measures)
Files:
Loading...
27. Raw sample e micro-CT - before reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
939
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample e micro-CT (before reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
28. Raw sample e micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
463
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample e micro-CT (after reconstruction and before targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
29. Raw sample e micro-CT - before reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1799
Image size:
(2016, 1344)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample e micro-CT (before reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
30. Raw sample e micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
PNG
No. of images or tilt series:
443
Image size:
(2016, 2016)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample e micro-CT (after reconstruction and after targeting) from Bruker Skyscan 1272, along with log files of scan settings
Files:
Loading...
31. sample_f_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(994, 1015)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample f before targeting (ready for crosshair)
Files:
Loading...
32. sample_f_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(993, 1015)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample f after targeting (ready for accuracy measures)
Files:
Loading...
33. Raw sample f micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(994, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample f micro-CT (after reconstruction and before targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
34. Raw sample f micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(993, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample f micro-CT (after reconstruction and after targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
35. sample_g_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(992, 1015)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample g before targeting (ready for crosshair)
Files:
Loading...
36. sample_g_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(1015, 987)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample g after targeting (ready for accuracy measures)
Files:
Loading...
37. Raw sample g micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(992, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample g micro-CT (after reconstruction and before targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
38. Raw sample g micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(987, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample g micro-CT (after reconstruction and after targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
39. sample_h_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(992, 1015)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample h before targeting (ready for crosshair)
Files:
Loading...
40. sample_h_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(991, 1015)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample h after targeting (ready for accuracy measures)
Files:
Loading...
41. Raw sample h micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(992, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample h micro-CT (after reconstruction and before targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
42. Raw sample h micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(991, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample h micro-CT (after reconstruction and after targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
43. sample_i_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(992, 1015)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample i before targeting (ready for crosshair)
Files:
Loading...
44. sample_i_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(1015, 991)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample i after targeting (ready for accuracy measures)
Files:
Loading...
45. Raw sample i micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(992, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample i micro-CT (after reconstruction and before targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
46. Raw sample i micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(991, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample i micro-CT (after reconstruction and after targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
47. sample_j_before_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(993, 1015)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample j before targeting (ready for crosshair)
Files:
Loading...
48. sample_j_after_targeting.tif
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(1015, 986)
Pixel type:
UNSIGNED BYTE
Pixel spacing:
(None, None)
Details:
Micro-CT of sample j after targeting (ready for accuracy measures)
Files:
Loading...
49. Raw sample j micro-CT - after reconstruction and before targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(993, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample j micro-CT (after reconstruction and before targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
50. Raw sample j micro-CT - after reconstruction and after targeting
Category:
reconstructed volumes
Image format:
TIFF
No. of images or tilt series:
1
Image size:
(986, 1015)
Pixel type:
UNSIGNED 16 BIT INTEGER
Pixel spacing:
(None, None)
Details:
Raw sample j micro-CT (after reconstruction and after targeting) from Versa 510 X-ray microscope (Zeiss). The corresponding before reconstruction file (.txrm) is available in the same directory.
Files:
Loading...
Files:
Loading...

Ito F, Alvarez-Cabrera AL, Liu S, Yang H, Shiriaeva A, Zhou ZH, Chen XS. (2023)
Rigden DJ, Fernández XM. (2023)
Iudin A, Korir PK, Somasundharam S, Weyand S, Cattavitello C, Fonseca N, Salih O, Kleywegt GJ, Patwardhan A. (2023)
Serra Lleti JM, Steyer AM, Schieber NL, Neumann B, Tischer C, Hilsenstein V, Holtstrom M, Unrau D, Kirmse R, Lucocq JM, Pepperkok R, Schwab Y. (2023)
Caldwell BJ, Norris AS, Karbowski CF, Wiegand AM, Wysocki VH, Bell CE. (2022)