ces.bb.stats

# Title Segmentation Statistics 
# 
# generating_program mri_segstats
# cvs_version $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
# cmdline mri_segstats --seg /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz --ctab /home/nmrclass/freesurfer/FreeSurferColorLUT.txt --id 1021 --id 1022 --id 1030 --id 17 --i ces.anat.bb.mgh --sum ces.bb.stats 
# sysname  Linux
# hostname nmrclass
# machine  x86_64
# user     nmrclass
# anatomy_type volume
# 
# SegVolFile /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz 
# SegVolFileTimeStamp  2017/02/08 11:13:38 
# ColorTable /home/nmrclass/freesurfer/FreeSurferColorLUT.txt 
# ColorTableTimeStamp 2017/01/18 17:00:02 
# InVolFile  ces.anat.bb.mgh 
# InVolFileTimeStamp  2017/02/10 22:38:30 
# InVolFrame 0 
# Only reporting non-empty segmentations
# 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 Mean 
# TableCol  6 FieldName Intensity Mean
# TableCol  6 Units     unknown
# TableCol  7 ColHeader StdDev
# TableCol  7 FieldName Itensity StdDev
# TableCol  7 Units     unknown
# TableCol  8 ColHeader Min
# TableCol  8 FieldName Intensity Min
# TableCol  8 Units     unknown
# TableCol  9 ColHeader Max
# TableCol  9 FieldName Intensity Max
# TableCol  9 Units     unknown
# TableCol 10 ColHeader Range
# TableCol 10 FieldName Intensity Range
# TableCol 10 Units     unknown
# NRows 4 
# NTableCols 10 
# ColHeaders  Index SegId NVoxels Volume_mm3 StructName Mean StdDev Min Max Range  
  1 1021      2752     2752.0  ctx-lh-pericalcarine             106.8231   148.2634   -93.9361   713.9155   807.8517 
  2 1022     12433    12433.0  ctx-lh-postcentral                27.3889    78.8337  -232.6694   461.8479   694.5173 
  3 1030     14850    14850.0  ctx-lh-superiortemporal           29.7299    74.3285  -143.5521   461.8479   605.4000 
  4  17      4534     4534.0  Left-Hippocampus                   2.2293    23.3774  -113.9432   131.5358   245.4790

ces.abs-masked.bb.stats

# Title Segmentation Statistics 
# 
# generating_program mri_segstats
# cvs_version $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
# cmdline mri_segstats --seg /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz --ctab /home/nmrclass/freesurfer/FreeSurferColorLUT.txt --id 1021 --id 1022 --id 1030 --id 17 --i ces.anat.bb.mgh --sum ces.abs-masked.bb.stats --mask sig.anat.bb.mgh --maskthresh 2 --masksign abs 
# sysname  Linux
# hostname nmrclass
# machine  x86_64
# user     nmrclass
# anatomy_type volume
# 
# SegVolFile /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz 
# SegVolFileTimeStamp  2017/02/08 11:13:38 
# ColorTable /home/nmrclass/freesurfer/FreeSurferColorLUT.txt 
# ColorTableTimeStamp 2017/01/18 17:00:02 
# MaskVolFile  sig.anat.bb.mgh 
#   MaskVolFileTimeStamp  2017/02/10 22:48:43 
#   MaskThresh 2.000000 
#   MaskSign   abs 
#   MaskFrame  0 
#   MaskInvert 0 
# InVolFile  ces.anat.bb.mgh 
# InVolFileTimeStamp  2017/02/10 22:38:30 
# InVolFrame 0 
# Only reporting non-empty segmentations
# 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 Mean 
# TableCol  6 FieldName Intensity Mean
# TableCol  6 Units     unknown
# TableCol  7 ColHeader StdDev
# TableCol  7 FieldName Itensity StdDev
# TableCol  7 Units     unknown
# TableCol  8 ColHeader Min
# TableCol  8 FieldName Intensity Min
# TableCol  8 Units     unknown
# TableCol  9 ColHeader Max
# TableCol  9 FieldName Intensity Max
# TableCol  9 Units     unknown
# TableCol 10 ColHeader Range
# TableCol 10 FieldName Intensity Range
# TableCol 10 Units     unknown
# NRows 4 
# NTableCols 10 
# ColHeaders  Index SegId NVoxels Volume_mm3 StructName Mean StdDev Min Max Range  
  1 1021      1535     1535.0  ctx-lh-pericalcarine             180.1391   163.3732   -93.9361   713.9155   807.8517 
  2 1022      5937     5937.0  ctx-lh-postcentral                60.8179   100.6084  -232.6694   461.8479   694.5173 
  3 1030      5012     5012.0  ctx-lh-superiortemporal           88.2699   100.3035  -143.5521   461.8479   605.4000 
  4  17       136      136.0  Left-Hippocampus                  26.6048    62.5893  -113.9432   131.5358   245.4790

ces.pos-masked.bb.stats

# Title Segmentation Statistics 
# 
# generating_program mri_segstats
# cvs_version $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
# cmdline mri_segstats --seg /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz --ctab /home/nmrclass/freesurfer/FreeSurferColorLUT.txt --id 1021 --id 1022 --id 1030 --id 17 --i ces.anat.bb.mgh --sum ces.pos-masked.bb.stats --mask sig.anat.bb.mgh --maskthresh 2 --masksign pos 
# sysname  Linux
# hostname nmrclass
# machine  x86_64
# user     nmrclass
# anatomy_type volume
# 
# SegVolFile /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz 
# SegVolFileTimeStamp  2017/02/08 11:13:38 
# ColorTable /home/nmrclass/freesurfer/FreeSurferColorLUT.txt 
# ColorTableTimeStamp 2017/01/18 17:00:02 
# MaskVolFile  sig.anat.bb.mgh 
#   MaskVolFileTimeStamp  2017/02/10 22:56:48 
#   MaskThresh 2.000000 
#   MaskSign   pos 
#   MaskFrame  0 
#   MaskInvert 0 
# InVolFile  ces.anat.bb.mgh 
# InVolFileTimeStamp  2017/02/10 22:38:30 
# InVolFrame 0 
# Only reporting non-empty segmentations
# 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 Mean 
# TableCol  6 FieldName Intensity Mean
# TableCol  6 Units     unknown
# TableCol  7 ColHeader StdDev
# TableCol  7 FieldName Itensity StdDev
# TableCol  7 Units     unknown
# TableCol  8 ColHeader Min
# TableCol  8 FieldName Intensity Min
# TableCol  8 Units     unknown
# TableCol  9 ColHeader Max
# TableCol  9 FieldName Intensity Max
# TableCol  9 Units     unknown
# TableCol 10 ColHeader Range
# TableCol 10 FieldName Intensity Range
# TableCol 10 Units     unknown
# NRows 4 
# NTableCols 10 
# ColHeaders  Index SegId NVoxels Volume_mm3 StructName Mean StdDev Min Max Range  
  1 1021      1424     1424.0  ctx-lh-pericalcarine             198.5072   155.1710    32.1526   713.9155   681.7629 
  2 1022      4339     4339.0  ctx-lh-postcentral               107.5108    72.4555    19.5321   461.8479   442.3158 
  3 1030      4283     4283.0  ctx-lh-superiortemporal          111.8215    88.4794    25.4251   461.8479   436.4228 
  4  17        79       79.0  Left-Hippocampus                  75.6666    28.8688    43.2457   131.5358    88.2900

ces.pos-masked.vol.stats

Measure:volume  ctx-lh-pericalcarine    ctx-lh-postcentral      ctx-lh-superiortemporal Left-Hippocampus
0       1408.0  4078.0  4384.0  57.0
1       1246.0  4780.0  4049.0  186.0
2       609.0   4057.0  2990.0  121.0
3       843.0   2928.0  2236.0  146.0
4       1614.0  4003.0  3873.0  232.0

ces.abs-masked.mean.stats

Measure:mean    ctx-lh-pericalcarine    ctx-lh-postcentral      ctx-lh-superiortemporal Left-Hippocampus
0       181.2534        58.9172 82.5216 16.8604
1       162.6065        70.9748 78.5134 -1.1652
2       264.1356        38.3964 73.2994 -42.7581
3       182.7722        74.2692 97.7955 31.554
4       118.7494        57.6731 96.149  10.9517

ces.pos-masked.mean.stats

Measure:mean    ctx-lh-pericalcarine    ctx-lh-postcentral      ctx-lh-superiortemporal Left-Hippocampus
0       198.1904        105.722   107.2234  77.5613
1       232.2992        108.0577  121.9527  37.9277
2       336.5665        111.2593  136.4619  81.3814
3       196.1099        81.4932   127.5857  77.9514
4       120.5139        91.797    113.7618  39.2072

FsTutorial/MultiModalFmriIndividual/BbStats (last edited 2017-03-23 13:37:38 by AndrewHoopes)

-  ⇤ ← Revision 1 as of 2009-01-15 19:19:23 → 
  Size: 2543
  Editor: SitaKakunoori
  Comment:
+   ← Revision 15 as of 2017-02-10 23:58:52 → ⇥
  Size: 9513
  Editor: AndrewHoopes
  Comment: replaced ces.pos-masked.bb.stats
-Deletions are marked like this.
+Additions are marked like this.
 Line 1:
-<<TableOfContents>>
+## page was renamed from FsTutorial/MultiModalFmriIndividual/BbStats_tktools
## page was renamed from FsTutorial/MultiModalFmriIndividual/BbStats
'''<<TableOfContents>>'''
-Line 4:
+Line 6:
-Line 9:
+Line 10:
-# cvs_version $Id: mri_segstats.c,v 1.49 2008/12/21 18:04:28 greve Exp $
# cmdline mri_segstats --seg /homes/4/greve/subjects/fbirn-anat-101.v4/mri/aparc+aseg.mgz --ctab /space/crash/1/users/greve/freesurferx86/FreeSurferColorLUT.txt --id 1021 --id 1022 --id 1030 --id 17 --i fbirn-101/ces.anat.bb.mgh --sum fbirn-101/ces.bb.stats
+# cvs_version $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
# cmdline mri_segstats --seg /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz --ctab /home/nmrclass/freesurfer/FreeSurferColorLUT.txt --id 1021 --id 1022 --id 1030 --id 17 --i ces.anat.bb.mgh --sum ces.bb.stats
-Line 12:
+Line 13:
-# hostname crash
+# hostname nmrclass
-Line 14:
+Line 15:
-# user     greve
+# user     nmrclass
-Line 17:
+Line 18:
-# SegVolFile /homes/4/greve/subjects/fbirn-anat-101.v4/mri/aparc+aseg.mgz 
# SegVolFileTimeStamp  2009/01/09 16:21:30 
# ColorTable /space/crash/1/users/greve/freesurferx86/FreeSurferColorLUT.txt 
# ColorTableTimeStamp 2008/12/31 11:38:16 
# InVolFile  fbirn-101/ces.anat.bb.mgh 
# InVolFileTimeStamp  2009/01/12 17:18:36
+# SegVolFile /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz 
# SegVolFileTimeStamp  2017/02/08 11:13:38 
# ColorTable /home/nmrclass/freesurfer/FreeSurferColorLUT.txt 
# ColorTableTimeStamp 2017/01/18 17:00:02 
# InVolFile  ces.anat.bb.mgh 
# InVolFileTimeStamp  2017/02/10 22:38:30
-Line 24:
+Line 25:
+# Only reporting non-empty segmentations
-Line 58:
+Line 60:
-1021      2586     2586.0  ctx-lh-pericalcarine             112.9913   146.7164   -64.4940   713.9155   778.4095 
  2 1022     12413    12413.0  ctx-lh-postcentral                25.1984    75.2930  -232.6694   461.8479   694.5173 
  3 1030     15147    15147.0  ctx-lh-superiortemporal           27.9277    71.8605  -143.5521   461.8479   605.4000 
  4  17      4385     4385.0  Left-Hippocampus                   1.2871    23.2438  -113.9432   116.7186   230.6618 

}}}
+1021      2752     2752.0  ctx-lh-pericalcarine             106.8231   148.2634   -93.9361   713.9155   807.8517 
  2 1022     12433    12433.0  ctx-lh-postcentral                27.3889    78.8337  -232.6694   461.8479   694.5173 
  3 1030     14850    14850.0  ctx-lh-superiortemporal           29.7299    74.3285  -143.5521   461.8479   605.4000 
  4  17      4534     4534.0  Left-Hippocampus                   2.2293    23.3774  -113.9432   131.5358   245.4790
}}}
= ces.abs-masked.bb.stats =
{{{
# Title Segmentation Statistics 
# 
# generating_program mri_segstats
# cvs_version $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
# cmdline mri_segstats --seg /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz --ctab /home/nmrclass/freesurfer/FreeSurferColorLUT.txt --id 1021 --id 1022 --id 1030 --id 17 --i ces.anat.bb.mgh --sum ces.abs-masked.bb.stats --mask sig.anat.bb.mgh --maskthresh 2 --masksign abs 
# sysname  Linux
# hostname nmrclass
# machine  x86_64
# user     nmrclass
# anatomy_type volume
# 
# SegVolFile /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz 
# SegVolFileTimeStamp  2017/02/08 11:13:38 
# ColorTable /home/nmrclass/freesurfer/FreeSurferColorLUT.txt 
# ColorTableTimeStamp 2017/01/18 17:00:02 
# MaskVolFile  sig.anat.bb.mgh 
#   MaskVolFileTimeStamp  2017/02/10 22:48:43 
#   MaskThresh 2.000000 
#   MaskSign   abs 
#   MaskFrame  0 
#   MaskInvert 0 
# InVolFile  ces.anat.bb.mgh 
# InVolFileTimeStamp  2017/02/10 22:38:30 
# InVolFrame 0 
# Only reporting non-empty segmentations
# 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 Mean 
# TableCol  6 FieldName Intensity Mean
# TableCol  6 Units     unknown
# TableCol  7 ColHeader StdDev
# TableCol  7 FieldName Itensity StdDev
# TableCol  7 Units     unknown
# TableCol  8 ColHeader Min
# TableCol  8 FieldName Intensity Min
# TableCol  8 Units     unknown
# TableCol  9 ColHeader Max
# TableCol  9 FieldName Intensity Max
# TableCol  9 Units     unknown
# TableCol 10 ColHeader Range
# TableCol 10 FieldName Intensity Range
# TableCol 10 Units     unknown
# NRows 4 
# NTableCols 10 
# ColHeaders  Index SegId NVoxels Volume_mm3 StructName Mean StdDev Min Max Range  
  1 1021      1535     1535.0  ctx-lh-pericalcarine             180.1391   163.3732   -93.9361   713.9155   807.8517 
  2 1022      5937     5937.0  ctx-lh-postcentral                60.8179   100.6084  -232.6694   461.8479   694.5173 
  3 1030      5012     5012.0  ctx-lh-superiortemporal           88.2699   100.3035  -143.5521   461.8479   605.4000 
  4  17       136      136.0  Left-Hippocampus                  26.6048    62.5893  -113.9432   131.5358   245.4790
}}}
= ces.pos-masked.bb.stats =
{{{
# Title Segmentation Statistics 
# 
# generating_program mri_segstats
# cvs_version $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $
# cmdline mri_segstats --seg /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz --ctab /home/nmrclass/freesurfer/FreeSurferColorLUT.txt --id 1021 --id 1022 --id 1030 --id 17 --i ces.anat.bb.mgh --sum ces.pos-masked.bb.stats --mask sig.anat.bb.mgh --maskthresh 2 --masksign pos 
# sysname  Linux
# hostname nmrclass
# machine  x86_64
# user     nmrclass
# anatomy_type volume
# 
# SegVolFile /home/nmrclass/tutorial_data/buckner_data/tutorial_subjs/fbirn-anat-101.v4/mri/aparc+aseg.mgz 
# SegVolFileTimeStamp  2017/02/08 11:13:38 
# ColorTable /home/nmrclass/freesurfer/FreeSurferColorLUT.txt 
# ColorTableTimeStamp 2017/01/18 17:00:02 
# MaskVolFile  sig.anat.bb.mgh 
#   MaskVolFileTimeStamp  2017/02/10 22:56:48 
#   MaskThresh 2.000000 
#   MaskSign   pos 
#   MaskFrame  0 
#   MaskInvert 0 
# InVolFile  ces.anat.bb.mgh 
# InVolFileTimeStamp  2017/02/10 22:38:30 
# InVolFrame 0 
# Only reporting non-empty segmentations
# 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 Mean 
# TableCol  6 FieldName Intensity Mean
# TableCol  6 Units     unknown
# TableCol  7 ColHeader StdDev
# TableCol  7 FieldName Itensity StdDev
# TableCol  7 Units     unknown
# TableCol  8 ColHeader Min
# TableCol  8 FieldName Intensity Min
# TableCol  8 Units     unknown
# TableCol  9 ColHeader Max
# TableCol  9 FieldName Intensity Max
# TableCol  9 Units     unknown
# TableCol 10 ColHeader Range
# TableCol 10 FieldName Intensity Range
# TableCol 10 Units     unknown
# NRows 4 
# NTableCols 10 
# ColHeaders  Index SegId NVoxels Volume_mm3 StructName Mean StdDev Min Max Range  
  1 1021      1424     1424.0  ctx-lh-pericalcarine             198.5072   155.1710    32.1526   713.9155   681.7629 
  2 1022      4339     4339.0  ctx-lh-postcentral               107.5108    72.4555    19.5321   461.8479   442.3158 
  3 1030      4283     4283.0  ctx-lh-superiortemporal          111.8215    88.4794    25.4251   461.8479   436.4228 
  4  17        79       79.0  Left-Hippocampus                  75.6666    28.8688    43.2457   131.5358    88.2900
}}}
= ces.pos-masked.vol.stats =
{{{
Measure:volume  ctx-lh-pericalcarine    ctx-lh-postcentral      ctx-lh-superiortemporal Left-Hippocampus
0       1408.0  4078.0  4384.0  57.0
1       1246.0  4780.0  4049.0  186.0
2       609.0   4057.0  2990.0  121.0
3       843.0   2928.0  2236.0  146.0
4       1614.0  4003.0  3873.0  232.0
}}}
= ces.abs-masked.mean.stats =
{{{
Measure:mean    ctx-lh-pericalcarine    ctx-lh-postcentral      ctx-lh-superiortemporal Left-Hippocampus
0       181.2534        58.9172 82.5216 16.8604
1       162.6065        70.9748 78.5134 -1.1652
2       264.1356        38.3964 73.2994 -42.7581
3       182.7722        74.2692 97.7955 31.554
4       118.7494        57.6731 96.149  10.9517
}}}
= ces.pos-masked.mean.stats =
{{{
Measure:mean    ctx-lh-pericalcarine    ctx-lh-postcentral      ctx-lh-superiortemporal Left-Hippocampus
0       198.1904        105.722   107.2234  77.5613
1       232.2992        108.0577  121.9527  37.9277
2       336.5665        111.2593  136.4619  81.3814
3       196.1099        81.4932   127.5857  77.9514
4       120.5139        91.797    113.7618  39.2072
}}}