[#6243] Voxel values present in scan but not listed in "seg_fill_values.txt"

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State: more information
Closed
Date:
2011-11-08 12:56
Priority: more information
3
Submitted By:
Andrew Worth (andy)
Assigned To: more information
Nobody (None)
Hardware: 
None
Product: 
None
Operating System: 
None
Component: 
None
Version: 
v1.1
Severity: 
minor
Resolution: 
Fixed
Summary: more information
Voxel values present in scan but not listed in "seg_fill_values.txt"

Detailed description

Here's a list of voxel values that were present in the given scan, but not listed in "seg_fill_values.txt":

HC_003 48
HC_008 61
HC_011 72
HC_014 61
HC_015 85
HC_016 85
HC_017 85
HC_018 85
HC_019 85
HC_020 85
HC_021 85
HC_022 85
HC_023 85
HC_024 85
HC_025 85
HC_026 85
HC_027 85
HC_028 77 85
HC_029 85

Response

Message

Date: 2012-02-15 09:17
Sender: David Kennedy

these are now fixed and released, in SchitzBull_2008 V1.2

Am closing this bug.


Date: 2011-12-08 15:54
Sender: David Kennedy

the undetermined class is a segmentation decision, small regions within the white matter.  These determinations were made and reviewed at CMA, and so will be left in the data.


Date: 2011-12-06 11:53
Sender: David Kennedy

added
72 5th-Ventricle

85 Optic-Chiasm

to seg_fill_values.txt


Date: 2011-12-05 12:19
Sender: David Kennedy

HC_003 has had the 48 (Thalamus) to 49 (Thalamus-Proper) in the seg fix; this will be propagated into into the V1.2 updated release.


Date: 2011-11-09 07:59
Sender: David Kennedy

Well, the short answer is these fill codes can be resolved by the 'complete' FreeSurferColorLUT.txt file (if you have the freesurfer distribution).  And I attach the file here for completeness.

In short we see that:

48 Right-Thalamus
61 Right-undetermined
72 5th-Ventricle
85 Optic-Chiasm
77 WM-hypointensities


Since these are somewhat 'non-standard' labels, the more interesting question is what to do about them.  Will think for awhile and respond again once I have a recommendation...

Attached Files:

Name Download
FreeSurferColorLUT.txt Download

Changes:

Field Old Value Date By
summaryVoxel values present in scan but not listed in "seg_fill_values.txt"2012-02-15 09:18dnkennedy
status_idOpen2012-02-15 09:18dnkennedy
ResolutionNone2012-02-15 09:17dnkennedy
New Message2012-02-15 09:17dnkennedy
summaryVoxel values present in scan but not listed in "seg_fill_values.txt"2012-02-15 09:17dnkennedy
New Message2011-12-08 15:54dnkennedy
summaryVoxel values present in scan but not listed in "seg_fill_values.txt"2011-12-08 15:54dnkennedy
New Message2011-12-06 11:53dnkennedy
summaryVoxel values present in scan but not listed in "seg_fill_values.txt"2011-12-06 11:53dnkennedy
New Message2011-12-05 12:19dnkennedy
summaryVoxel values present in scan but not listed in "seg_fill_values.txt"2011-12-05 12:19dnkennedy
File Added430: FreeSurferColorLUT.txt2011-11-09 07:59dnkennedy
New Message2011-11-09 07:59dnkennedy
summaryVoxel values present in scan but not listed in "seg_fill_values.txt"2011-11-09 07:59dnkennedy