Hi Freesurfer team,

Thank you in advance for your help.  We are attempting to obtain left 
hemisphere and right hemisphere volumes for various grey and white matter 
structures in a variety of controls and brain injured patients.  However, 
values for the corpus callosum are often not reported in aparc.stats files for 
either hemisphere.  This has occurred for both patients and normal controls.   
Is there a reason why these values are not being computed? 

Also, in the aseg.stats for several patients, the Corpus Callosum mean values 
are reported as 0.0000 with SD, Min, and Max of 0 as well.  Are the brains 
perhaps too structurally abnormal to report a reliable value?  The subjects 
with this problem had a ventriculostomy, which damaged the corpus callosum to 
some extent. Should CC values for these patients be considered unusable?  I 
have attached a T1-hdr file for your reference.  In addition, I have attached 
the aseg.stats file for this subject(which reports a CC value of 0) and the 
lh.aparc.stats file (which did not report a corpus callosum value). If the 
ventriculostomy is to blame, can you provide a reason why for some normal 
controls the corpus callosum volume was not calculated for left and right 
hemispheres?  Any insight you could provide would be greatly appreciated.

Thank you very much for your time and help,

Matt




Attachment: St5B-T1.hdr
Description: St5B-T1.hdr

# Title Segmentation Statistics 
# 
# generating_program mri_segstats
# cvs_version $Id: mri_segstats.c,v 1.20 2006/07/31 21:56:54 greve Exp $
# cmdline mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv 
mri/norm.mgz --excludeid 0 --brain-vol-from-seg --brainmask mri/brainmask.mgz 
--in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv 
--subject St5-Rescan --ctab /Applications/freesurfer/ASegStatsLUT.txt 
# anatomy_type volume
# 
# BrainMaskFile  mri/brainmask.mgz 
# BrainMaskFileTimeStamp  2007/19/10 15:49:01 
# Measure BrainMask, BrainMaskNVox, Number of Brain Mask Voxels, 1767972, 
unitless
# Measure BrainMask, BrainMaskVol, Brain Mask Volume, 1767972.000000, mm^3
# Measure BrainSeg, BrainSegNVox, Number of Brain Segmentation Voxels, 1419930, 
unitless
# Measure BrainSeg, BrainSegVol, Brain Segmentation Volume, 1419930.000000, mm^3
# Measure IntraCranialVol, ICV, Intracranial Volume, 1418598.542711, mm^3
# SegVolFile mri/aseg.mgz 
# SegVolFileTimeStamp  2007/20/10 02:25:35 
# ColorTable /Applications/freesurfer/ASegStatsLUT.txt 
# ColorTableTimeStamp 2006/30/09 13:45:29 
# InVolFile  mri/norm.mgz 
# InVolFileTimeStamp  2007/19/10 16:35:29 
# InVolFrame 0 
# PVVolFile  mri/norm.mgz 
# PVVolFileTimeStamp  2007/19/10 16:35:29 
# ExcludeSegId 0 
# VoxelVolume_mm3 1 
# TableCol  1 ColHeader Index 
# TableCol  1 FieldName Index 
# TableCol  1 Units     NA 
# TableCol  2 ColHeader SegId 
# TableCol  2 FieldName Segmentation Id
# TableCol  2 Units     NA
# TableCol  3 ColHeader NVoxels 
# TableCol  3 FieldName Number of Voxels
# TableCol  3 Units     unitless
# TableCol  4 ColHeader Volume_mm3
# TableCol  4 FieldName Volume
# TableCol  4 Units     mm^3
# TableCol  5 ColHeader StructName
# TableCol  5 FieldName Structure Name
# TableCol  5 Units     NA
# TableCol  6 ColHeader normMean 
# TableCol  6 FieldName Intensity normMean
# TableCol  6 Units     MR
# TableCol  7 ColHeader normStdDev
# TableCol  7 FieldName Itensity normStdDev
# TableCol  7 Units     MR
# TableCol  8 ColHeader normMin
# TableCol  8 FieldName Intensity normMin
# TableCol  8 Units     MR
# TableCol  9 ColHeader normMax
# TableCol  9 FieldName Intensity normMax
# TableCol  9 Units     MR
# TableCol 10 ColHeader normRange
# TableCol 10 FieldName Intensity normRange
# TableCol 10 Units     MR
# NRows 48 
# NTableCols 10 
# ColHeaders  Index SegId NVoxels Volume_mm3 StructName normMean normStdDev 
normMin normMax normRange  
  1   2    258032   258032.0  Left-Cerebral-White-Matter       108.5969     
7.9733    35.0000   192.0000   157.0000 
  2   3    319891   319891.0  Left-Cerebral-Cortex              82.2331    
11.0305    31.0000   181.0000   150.0000 
  3   4      6403     6403.0  Left-Lateral-Ventricle            45.5700    
12.5943    19.0000    88.0000    69.0000 
  4   5       795      795.0  Left-Inf-Lat-Vent                 56.7010    
16.0756    23.0000    98.0000    75.0000 
  5   7     17463    17463.0  Left-Cerebellum-White-Matter      94.6489     
7.2514    41.0000   125.0000    84.0000 
  6   8     57382    57382.0  Left-Cerebellum-Cortex            77.9218    
11.1002    28.0000   196.0000   168.0000 
  7  10      7420     7420.0  Left-Thalamus-Proper              96.5092     
8.6714    58.0000   121.0000    63.0000 
  8  11      3078     3078.0  Left-Caudate                      93.4770     
9.2975    56.0000   125.0000    69.0000 
  9  12      5248     5248.0  Left-Putamen                      95.2749     
6.5034    61.0000   115.0000    54.0000 
 10  13      1114     1114.0  Left-Pallidum                    111.6038     
8.2461    89.0000   131.0000    42.0000 
 11  14      1345     1345.0  3rd-Ventricle                     52.4789    
11.3651    21.0000    85.0000    64.0000 
 12  15      2594     2594.0  4th-Ventricle                     48.8474     
8.3808    27.0000    77.0000    50.0000 
 13  16     20586    20586.0  Brain-Stem                        90.9104    
10.9212    34.0000   117.0000    83.0000 
 14  17      4937     4937.0  Left-Hippocampus                  80.7524     
8.3257    43.0000   108.0000    65.0000 
 15  18      1704     1704.0  Left-Amygdala                     81.3604     
7.5608    50.0000   106.0000    56.0000 
 16  24      2118     2118.0  CSF                               60.6056    
13.7005    24.0000   101.0000    77.0000 
 17  26       669      669.0  Left-Accumbens-area               85.8443     
6.3001    63.0000   114.0000    51.0000 
 18  28      4007     4007.0  Left-VentralDC                    96.5894    
10.9231    49.0000   124.0000    75.0000 
 19  30        78       78.0  Left-vessel                       76.4930    
12.2636    50.0000   102.0000    52.0000 
 20  31         0        0.0  Left-choroid-plexus                0.0000     
0.0000     0.0000     0.0000     0.0000 
 21  41    276320   276320.0  Right-Cerebral-White-Matter      110.4005     
8.2597    44.0000   170.0000   126.0000 
 22  42    315288   315288.0  Right-Cerebral-Cortex             84.0824    
10.8264     0.0000   178.0000   178.0000 
 23  43      9241     9241.0  Right-Lateral-Ventricle           45.3153    
13.4594    19.0000    98.0000    79.0000 
 24  44       222      222.0  Right-Inf-Lat-Vent                57.0602    
12.7758    29.0000    95.0000    66.0000 
 25  46     13535    13535.0  Right-Cerebellum-White-Matter     95.4856     
5.8509    50.0000   140.0000    90.0000 
 26  47     59673    59673.0  Right-Cerebellum-Cortex           81.4773    
10.7986    32.0000   170.0000   138.0000 
 27  49      6949     6949.0  Right-Thalamus-Proper             96.2021     
9.3082    52.0000   121.0000    69.0000 
 28  50      4103     4103.0  Right-Caudate                     89.4463     
8.7990    51.0000   113.0000    62.0000 
 29  51      4891     4891.0  Right-Putamen                    101.4397     
6.5465    73.0000   118.0000    45.0000 
 30  52      1816     1816.0  Right-Pallidum                   114.0245     
5.7157    95.0000   131.0000    36.0000 
 31  53      5000     5000.0  Right-Hippocampus                 78.1196     
9.1730    45.0000   104.0000    59.0000 
 32  54      1528     1528.0  Right-Amygdala                    81.2189     
6.9702    56.0000   101.0000    45.0000 
 33  58       799      799.0  Right-Accumbens-area              87.0969     
5.5732    64.0000   104.0000    40.0000 
 34  60      4659     4659.0  Right-VentralDC                   97.7320    
11.2039    48.0000   128.0000    80.0000 
 35  62        68       68.0  Right-vessel                      76.8214    
11.8799    53.0000    99.0000    46.0000 
 36  72       118      118.0  5th-Ventricle                     62.7755     
7.0001    46.0000    82.0000    36.0000 
 37  77         0        0.0  WM-hypointensities                 0.0000     
0.0000     0.0000     0.0000     0.0000 
 38  78      1257     1257.0  Left-WM-hypointensities           81.1010    
16.4823    34.0000   117.0000    83.0000 
 39  79       911      911.0  Right-WM-hypointensities          81.9619    
13.5290    32.0000   110.0000    78.0000 
 40  80         0        0.0  non-WM-hypointensities             0.0000     
0.0000     0.0000     0.0000     0.0000 
 41  81         5        5.0  Left-non-WM-hypointensities       66.5714    
11.9004    49.0000    85.0000    36.0000 
 42  82         0        0.0  Right-non-WM-hypointensities       0.0000     
0.0000     0.0000     0.0000     0.0000 
 43  85       301      301.0  Optic-Chiasm                      76.6491    
13.5073    44.0000   104.0000    60.0000 
 44 251         0        0.0  CC_Posterior                       0.0000     
0.0000     0.0000     0.0000     0.0000 
 45 252         0        0.0  CC_Mid_Posterior                   0.0000     
0.0000     0.0000     0.0000     0.0000 
 46 253         0        0.0  CC_Central                         0.0000     
0.0000     0.0000     0.0000     0.0000 
 47 254         0        0.0  CC_Mid_Anterior                    0.0000     
0.0000     0.0000     0.0000     0.0000 
 48 255         0        0.0  CC_Anterior                        0.0000     
0.0000     0.0000     0.0000     0.0000 
# Table of FreeSurfer cortical parcellation anatomical statistics 
# 
# CreationTime 2008/02/29-20:08:20-GMT
# generating_program mris_anatomical_stats
# cvs_version $Id: mris_anatomical_stats.c,v 1.54 2007/08/02 17:37:13 nicks Exp 
$
# mrisurf.c-cvs_version $Id: mrisurf.c,v 1.557.2.5 2007/12/10 20:20:29 nicks 
Exp $
# cmdline mris_anatomical_stats -mgz -f ../stats/lh.aparc.stats -b -a 
../label/lh.aparc.annot -c ../label/aparc.annot.ctab St5-Rescan lh 
# 
# anatomy_type surface
# hemi lh
# AnnotationFile ../label/lh.aparc.annot
# AnnotationFileTimeStamp 2008/02/29 14:07:55
# Measure Cortex, NumVert, Number of Vertices, 163622, unitless
# Measure Cortex, SurfArea, Surface Area,  101781, mm^2
# NTableCols 10
# TableCol  1 ColHeader StructName
# TableCol  1 FieldName Structure Name
# TableCol  1 Units     NA
# TableCol  2 ColHeader NumVert
# TableCol  2 FieldName Number of Vertices
# TableCol  2 Units     unitless
# TableCol  3 ColHeader SurfArea
# TableCol  3 FieldName Surface Area
# TableCol  3 Units     mm^2
# TableCol  4 ColHeader GrayVol
# TableCol  4 FieldName Gray Matter Volume
# TableCol  4 Units     mm^3
# TableCol  5 ColHeader ThickAvg 
# TableCol  5 FieldName Average Thickness
# TableCol  5 Units     mm
# TableCol  6 ColHeader ThickStd
# TableCol  6 FieldName Thickness StdDev
# TableCol  6 Units     mm 
# TableCol  7 ColHeader MeanCurv
# TableCol  7 FieldName Integrated Rectified Mean Curvature
# TableCol  7 Units     mm^-1
# TableCol  8 ColHeader GausCurv 
# TableCol  8 FieldName Integrated Rectified Gaussian Curvature
# TableCol  8 Units     mm^-2
# TableCol  9 ColHeader  FoldInd
# TableCol  9 FieldName  Folding Index 
# TableCol  9 Units      unitless 
# TableCol 10 ColHeader CurvInd
# TableCol 10 FieldName Intrinsic Curvature Index
# TableCol 10 Units     unitless
# ColHeaders StructName NumVert SurfArea GrayVol ThickAvg ThickStd MeanCurv 
GausCurv FoldInd CurvInd
unknown                                 11827   7812  14176  1.758 1.639     
0.162     0.215      954    92.3
bankssts                                 2005   1375   3829  2.881 0.656     
0.127     0.036       23     3.1
caudalanteriorcingulate                   916    575   2270  3.174 0.956     
0.163     0.079       19     3.1
caudalmiddlefrontal                      3535   2031   5092  2.422 0.613     
0.126     0.192      454    15.6
cuneus                                   2963   1913   3609  1.919 0.570     
0.187     0.186       96    19.4
entorhinal                                481    319   1278  2.881 0.728     
0.201     0.116       16     2.9
fusiform                                 4567   3111   9455  2.631 0.722     
0.162     0.087      261    15.6
inferiorparietal                         9107   5494  15868  2.640 0.693     
0.147     0.096      600    39.6
inferiortemporal                         6470   4121  14340  2.769 0.909     
0.177     0.191      276    54.9
isthmuscingulate                         1020    673   2342  3.176 0.830     
0.172     0.073       23     3.0
lateraloccipital                        10383   6491  15553  2.286 0.778     
0.163     0.087      355    39.3
lateralorbitofrontal                     4991   3364   9158  2.681 0.744     
0.182     0.098      126    22.0
lingual                                  5140   3407   8189  2.280 0.705     
0.168     0.085      122    19.2
medialorbitofrontal                      2880   1941   6211  2.792 0.744     
0.180     0.116       89    13.0
middletemporal                           5648   3731  14696  3.125 0.760     
0.140     0.067      107    15.0
parahippocampal                          1064    688   2277  2.813 0.847     
0.135     0.071       14     3.2
paracentral                              2652   1582   3921  2.233 0.652     
0.143     0.108      142    12.8
parsopercularis                          2969   1788   6121  2.955 0.677     
0.143     0.090       62    10.4
parsorbitalis                            1222    763   2705  2.797 0.784     
0.206     0.393      420    29.2
parstriangularis                         3119   1864   5419  2.587 0.678     
0.150     0.246      425    26.2
pericalcarine                            2769   1784   2581  1.628 0.557     
0.163     0.130       79    11.0
postcentral                              6516   3956   8642  1.956 0.797     
0.126     0.055       92    14.8
posteriorcingulate                       1701   1195   3747  2.820 0.643     
0.158     0.067       37     4.8
precentral                               8198   4715  13342  2.597 0.600     
0.124     0.077      362    29.9
precuneus                                6773   4373  11306  2.343 0.663     
0.143     0.074      128    19.1
rostralanteriorcingulate                 1131    721   2601  2.994 0.990     
0.161     0.209       79     4.8
rostralmiddlefrontal                    13460   7832  21597  2.458 0.676     
0.161     0.156     1244    86.3
superiorfrontal                         13561   8068  23478  2.646 0.741     
0.144     0.099      378    47.6
superiorparietal                        11408   6640  14920  2.085 0.624     
0.135     0.072      470    34.6
superiortemporal                         6550   4103  13896  2.878 0.685     
0.142     0.177      427    24.3
supramarginal                            6616   4143  12548  2.697 0.693     
0.134     0.061      163    18.0
frontalpole                               456    246    666  2.123 0.972     
0.191     0.124       13     2.7
temporalpole                              712    511   1863  2.839 0.914     
0.277     0.606       65    10.3
transversetemporal                        812    452   1307  2.674 0.370     
0.128     0.067       12     2.7
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