Owenia fusiformis µCT scan

µCT scan of a specimen of Owenia fusiformis stained with PTA for one week. Scan and reconstruction were obtained with the following settings:

[System]
Scanner=SkyScan1272
Instrument S/N=15H09112
Software Version=1.1.10
Source Type=HAMAMATSU_L11871_20
Camera Type=XIMEA xiRAY16
Camera Pixel Size (µm)=7.4
Camera X/Y Ratio=1.0058

[Acquisition]
Number Of Files=  940
Number Of Rows= 1640
Number Of Columns= 2452
Partial Width=OFF
Image crop origin X=0
Image crop origin Y=0
Camera binning=2x2
Image Rotation=-0.00100
Optical Axis (line)=  932
Camera to Source (mm)=274.64085
Object to Source (mm)=50.22367
Source Voltage (kV)=  45
Source Current (µA)= 165
Image Pixel Size (µm)=2.706481
Scaled Image Pixel Size (µm)=2.706481
Image Format=TIFF
Depth (bits)=16
Reference Intensity=57000
Exposure (ms)=1166
Rotation Step (deg)=0.200
Use 360 Rotation=NO
Scanning position=12.126 mm
Frame Averaging=ON (3)
Random Movement=OFF (15)
Flat Field Correction=ON
FF updating interval=94
Geometrical Correction=ON
Filter=No Filter
Gantry direction=CC
Rotation Direction=CC
Type of Detector Motion=STEP AND SHOOT
Scanning Trajectory=ROUND
Number Of Horizontal Offset Positions=1
Number of connected scans=5
Current scan number=1
Number of lines to be reconstructed=1290
Scan duration=1h:16m:33s
Maximum vertical TS=5.0
[Reconstruction]
Reconstruction Program=NRecon
Program Version=Version: 1.7.1.0
Reconstruction engine=InstaRecon
Engine version=Version: 2.0.3.7
Reconstruction from batch=Yes
Postalignment=5.50
Connected Reconstruction (parts)=5
Sub-scan post alignment [0]=-0.500000
Sub-scan post alignment [1]=3.000000
Sub-scan post alignment [2]=5.500000
Sub-scan post alignment [3]=5.500000
Sub-scan post alignment [4]=9.000000
Sub-scan scan length [0]=1292
Sub-scan scan length [1]=1290
Sub-scan scan length [2]=1292
Sub-scan scan length [3]=1289
Sub-scan scan length [4]=1290
Used extra shift in X per scan(micron)= 0.000  9.266  21.355  35.921  42.377 
Used extra shift in Y per scan(micron)= 0.000  -18.235  -28.164  -29.070  -33.034 
Reconstruction servers= SKYSCAN1272 
First Section=359
Last Section=5289
Reconstruction duration per slice (seconds)=0.298839
Total reconstruction time (3875 slices) in seconds=1158.000000
Section to Section Step=1
Sections Count=4931
Result File Type=TIF
Result File Header Length (bytes)=12
Result Image Width (pixels)=2252
Result Image Height (pixels)=2220
Pixel Size (µm)=2.70648
Reconstruction Angular Range (deg)=188.00
Use 180+=OFF
Angular Step (deg)=0.2000
Smoothing=3
Smoothing kernel=2 (Gaussian)
Ring Artifact Correction=28
Draw Scales=OFF
Object Bigger than FOV=OFF
Reconstruction from ROI=ON
ROI Top (pixels)=2305
ROI Bottom (pixels)=82
ROI Left (pixels)=117
ROI Right (pixels)=2369
ROI reference length=2452
Filter cutoff relative to Nyquist frequency=100
Filter type=0
Filter type description=Hamming (Alpha=0.54)
Undersampling factor=1
Threshold for defect pixel mask (%)=0
Beam Hardening Correction (%)=64
CS Static Rotation (deg)=0.00
Minimum for CS to Image Conversion=0.038815
Maximum for CS to Image Conversion=0.506935
HU Calibration=OFF
BMP LUT=0
Cone-beam Angle Horiz.(deg)=7.559776
Cone-beam Angle Vert.(deg)=5.060350
Automatic matching in Z=50
Automatic matching in X/Y=50
Automatic matching in rotation=0.000000
Automatic fusion=1

Data size has been reduced by conversion from 16-bit to 8-bit and decreasing the scale of the images.