Media 000615312: Whole Body
Restricted Download
Type Volumetric Image Series
Modality X-Ray Computed Tomography (CT/microCT)
Media represents biological specimen
cumv:fish:91394 Synodontis angelicus
Managed by
Casey Dillman

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Media produced from the same original imaging that created Media 000615312 (this media). Includes all media associated with this media through an imaging and processing workflow.

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GENERAL DETAILS Field Definitions

Media ID
000615312
Media type
Volumetric Image Series
Object element or part
whole body
Object represented
cumv:fish:91394
Object taxonomy
Synodontis angelicus
Object organization
CUMV Museum of Vertebrates, Fish Collection
Side
--
Orientation
--
Short description
HRXCT scan - whole body
Full description
University of Texas High-Resolution X-ray CT Facility Archive 1444 Vigliotta: Synodontis: Scans of a whole Synodontis angelicus (CU 91394; Oubangui River downriver from Mobaye, Basse-Kotto, Central African Republic, Africa; collected Bills, Friel & Reid 28 February 2006) for Tom Vigliotta of Cornell University. Specimen scanned by Matthew Colbert on 11 May 2006. 16bitrot: 1024x1024 16-bit TIFF images. II, 225 kV, 0.1 mA, no filter, empty container wedge, no offset, slice thickness (2 lines = 0.1056 mm), S.O.D. 150 mm, 1600 views, 2 samples per view, inter-slice spacing (2 lines = 0.1056 mm), field of reconstruction 49 mm (maximum field of view 49.08633 mm), reconstruction offset 3300, reconstruction scale 4000. Acquired with 19 slices per rotation, and 15 slices per set. Drift- and ring-removal processing done by Alison Mote based on correction of raw sinogram data using IDL routines “RK_SinoDeDrift” and “RK_SinoRingProcSimul”, both with default parameters. Reconstructed with a rotation of 3 degrees clockwise, x offset = -2, and y offset = 2. Rotation correction processing done by Jessie Maisano using IDL routine “DoRotationCorrection.” Total final slices = 1125.
Creator
Matthew Colbert
Date created
May 11, 2006
Date uploaded
March 26, 2024

FILE OBJECT DETAILS Field Definitions

File name
16bitrot.zip
File format(s)
ZIP archive, TIFF
File size
1.38 GB
Image width
962
Image height
1011
Color space
BlackIsZero
Color depth
16
Compression
Uncompressed
Series type
Reconstructed image stack
X pixel spacing
0.047900
Y pixel spacing
0.047900
Z pixel spacing
0.105600
Pixel spacing units
Mm
Slice thickness
--
Number of images in set
1,125

IMAGE ACQUISITION AND PROCESSING AT A GLANCE Field Definitions

Number of parent media
0
Number of processing events
1 (0 steps)
Modality
X-Ray Computed Tomography (CT/microCT)
Device
Varian Medical Systems (Bio-Imaging Research, Inc) ACTIS CT scanner with FeinFocus X-ray source, The University of Texas High-Resolution X-ray Computed Tomography Facility (University of Texas at Austin)

OWNERSHIP AND PERMISSIONS Field Definitions

Data managed by
Casey Dillman
Data uploaded by
Lauren Nguyen
Publication status
Restricted Download
Download reviewer
Casey Dillman; Jessie Maisano
IP holder
Cornell University
Copyright statement
 In Copyright - Non-Commercial Use Permitted
Creative Commons license
 Creative Commons BY-NC Attribution-NonCommercial 4.0 International
Morphosource use agreement type
Standard
Permits commercial use
Commercial Use Not Permitted
Permits 3D use
3D Printing Limited
Required archival of published derivatives
On MorphoSource
Funding attribution
DBI-1902242, DEB-0315963
Publisher
oUTCT PEN
Cite as
Funding for scanning was provided by NSF grant DEB-0315963 to Lawrence Page. Data upload to MorphoSource was funded by DBI-1902242. The files were downloaded from www.MorphoSource.org, Duke University.
Media preview mode
Interactive/Embeddable
Additional usage agreement
None

IDENTIFIERS AND EXTERNAL LINKS Field Definitions

MorphoSource ARK
 ark:/87602/m4/615312
MorphoSource DOI
Not assigned
External identifier
--
External media URL
https://www.digimorph.org/specimens/Synodontis_angelicus/whole/

IMAGE ACQUISITION AND PROCESSING IN DETAIL

STEP 1: IMAGE ACQUISITION

Physical object cumv:fish:91394 was imaged to create undeposited raw media.

IMAGING DETAILS Field Definitions

Modality
X-Ray Computed Tomography (CT/microCT)
Device
Device facility
The University of Texas High-Resolution X-ray Computed Tomography Facility (University of Texas at Austin)
Creator
Matthew Colbert
Event date
May 11, 2006
Software
--
Description
--
Description attachment
None
Reference attachment
None
Exposure time
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Flux normalization
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Pixel spacing calibration
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Shading correction
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Frame averaging
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Projections
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Surrounding material
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X-ray tube type
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Target type
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Detector type
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Detector pixels X
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Detector pixels size X
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Detector pixels Y
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Detector pixels size Y
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Detector configuration
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Source object distance
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Source detector distance
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Target material
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Rotation number
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Phase contrast
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Optical magnification
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Acquisition type
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STEP 2: IMAGE PROCESSING

Raw media (undeposited) was processed to create derived Media 000615312: Whole Body [CTImageSeries] [CT] (this media).

Processing Details Field Definitions

Creator
--
Event date
--
Software
--
Description
--
Description attachment
None

Media produced by this event on MorphoSource

Media 000615312: Whole Body [CTImageSeries] [CT] (this media)