Media 000691249: Stained Head
Restricted Download
Type Volumetric Image Series
Modality X-Ray Computed Tomography (CT/microCT)
Media represents biological specimen
Managed by

Media Display

In Collections

Project
· Public

TAGS

No tags found.

GENERAL DETAILS Field Definitions

Media ID
000691249
Media type
Volumetric Image Series
Object element or part
stained head
Object represented
Object taxonomy
Aythya americana
Side
--
Orientation
--
Short description
HRXCT scan - stained head
Full description
Li: redhdB: Scans of an iodine stained head of a redhead (Athya americana) for Zhiheng Li of the University of Texas at Austin. Specimen scanned by Matthew Colbert 18 June 2013. 16bitrot: 1024x1024 16-bit TIFF images. II, 200 kV, 0.22 mA, intensity control off, high-power mode, no filter, empty cylinder wedge, no offset, slice thickness 1 line ( = 0.07144 mm), S.O.D. 205 mm, 1400 views, 3 samples per view, inter-slice spacing 1 line ( = 0.07144 mm), field of reconstruction 68 mm (maximum field of view 68.19559 mm), reconstruction offset 5000, scanner scale 4000, reconstruction scale 2800. Acquired with 31 slices per rotation and 25 slices per set. Ring-removal processing done by Matthew Colbert based on correction of raw sinogram using IDL routine “RK_SinoRingProcSimul” with parameters “bestof5=11, binwidth=17.” Reconstructed with beam-hardening coefficients [0, 0.8, 0.15] and 1402 views. Deleted first 6 duplicate slices from each rotation. Rotation correction processing done by Matthew Colbert using IDL routine “DoRotationCorrection.” Deleted first 11 and last 64 blank slices. Total final slices = 1675.
Creator
Matthew Colbert
Date created
June 18, 2013
Date uploaded
December 03, 2024

FILE OBJECT DETAILS Field Definitions

File name
File format(s)
ZIP archive, TIFF
File size
1.27 GB
Image width
524
Image height
985
Color space
BlackIsZero
Color depth
16
Compression
Uncompressed
Series type
Reconstructed image stack
X pixel spacing
0.066410
Y pixel spacing
0.066410
Z pixel spacing
0.071440
Pixel spacing units
Mm
Slice thickness
--
Number of images in set
1,675

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
Data uploaded by
Publication status
Restricted Download
Download reviewer
IP holder
University of Texas Vertebrate Paleontology Collections
Copyright statement
Creative Commons license
--
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
Publisher
oUTCT PEN
Cite as
These data were acquired for Zhiheng Li and Julia Clarke. Funding for data upload to MorphoSource was provided by NSF DBI-1902242.
Media preview mode
Interactive/Embeddable
Additional usage agreement
None

IDENTIFIERS AND EXTERNAL LINKS Field Definitions

MorphoSource ARK
MorphoSource DOI
Not assigned
External identifier
--
External media URL
--

IMAGE ACQUISITION AND PROCESSING IN DETAIL

STEP 1: IMAGE ACQUISITION

Physical object txvp:M:12045 was imaged to create undeposited raw media.

IMAGING DETAILS Field Definitions

Modality
X-Ray Computed Tomography (CT/microCT)
Device facility
The University of Texas High-Resolution X-ray Computed Tomography Facility (University of Texas at Austin)
Creator
Matthew Colbert
Event date
June 18, 2013
Software
--
Description
Li: redhdB: Scans of an iodine stained head of a redhead (Athya americana) for Zhiheng Li of the University of Texas at Austin. Specimen scanned by Matthew Colbert 18 June 2013. 16bitrot: 1024x1024 16-bit TIFF images. II, 200 kV, 0.22 mA, intensity control off, high-power mode, no filter, empty cylinder wedge, no offset, slice thickness 1 line ( = 0.07144 mm), S.O.D. 205 mm, 1400 views, 3 samples per view, inter-slice spacing 1 line ( = 0.07144 mm), field of reconstruction 68 mm (maximum field of view 68.19559 mm), reconstruction offset 5000, scanner scale 4000, reconstruction scale 2800. Acquired with 31 slices per rotation and 25 slices per set. Ring-removal processing done by Matthew Colbert based on correction of raw sinogram using IDL routine “RK_SinoRingProcSimul” with parameters “bestof5=11, binwidth=17.” Reconstructed with beam-hardening coefficients [0, 0.8, 0.15] and 1402 views. Deleted first 6 duplicate slices from each rotation. Rotation correction processing done by Matthew Colbert using IDL routine “DoRotationCorrection.” Deleted first 11 and last 64 blank slices. Total final slices = 1675.
Description Attachment
None
Photographic Reference
None
Filter
none
Exposure time
--
Flux normalization
--
Pixel spacing calibration
--
Shading correction
--
Frame averaging
3
Projections
1400
Voltage
200
Power
--
Amperage
220
Surrounding material
--
X-ray tube type
--
Target type
--
Detector type
--
Detector pixels X
--
Detector pixels size X
--
Detector pixels Y
--
Detector pixels size Y
--
Detector configuration
--
Source object distance
--
Source detector distance
--
Target material
--
Rotation number
--
Phase contrast
--
Optical magnification
--
Acquisition type
--

STEP 2: IMAGE PROCESSING

Raw media (undeposited) was processed to create derived Media 000691249: Stained Head [CTImageSeries] [CT] (this media).

Processing Details Field Definitions

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

Media produced by this event on MorphoSource

Media 000691249: Stained Head [CTImageSeries] [CT] (this media)