Changes between Version 8 and Version 9 of barSoftwareParsersAba


Ignore:
Timestamp:
08/15/11 23:11:52 (13 years ago)
Author:
pmajka
Comment:

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  • barSoftwareParsersAba

    v8 v9  
    88  2. Coordinates in this volume are expressed in  [http://incf-dev.crbs.ucsd.edu/aba/atlas?service=WPS&version=1.0.0&request=Execute&Identifier=ListSRSs Mouse_ABAvoxel_1.0] (`ABAvoxel, INCF:0100`) SRS, in which units of measurements are voxels. In order to express coordinates in stereotaxic coordinates (with bregma as origin of the coordinate system), the volume has to be transformed into [http://incf-dev.crbs.ucsd.edu/aba/atlas?service=WPS&version=1.0.0&request=Execute&Identifier=ListSRSs Mouse_ABAreference_1.0] SRS (`ABAreference, INCF:0101`). 
    99 
    10   3. Such transfomration is given by the [http://code.google.com/p/incf-dai/wiki/AtlasRequestInterfaceSpec#TransformPOI TransfomPOI] INCF DAI service (ie. [http://incf-dev.crbs.ucsd.edu/aba/atlas?service=WPS&version=1.0.0&request=Execute&Identifier=TransformPOI&DataInputs=transformationCode=Mouse_ABAvoxel_1.0_To_Mouse_ABAreference_1.0_v1.0;x=1;y=112;z=162 this request]). 
     10  3. Such transformation is given by the [http://code.google.com/p/incf-dai/wiki/AtlasRequestInterfaceSpec#TransformPOI TransfomPOI] INCF DAI service (ie. [http://incf-dev.crbs.ucsd.edu/aba/atlas?service=WPS&version=1.0.0&request=Execute&Identifier=TransformPOI&DataInputs=transformationCode=Mouse_ABAvoxel_1.0_To_Mouse_ABAreference_1.0_v1.0;x=1;y=112;z=162 this request]). 
    1111 
    1212  4. Tranformation may be calculated from 4 points in `ABAvoxel` SRS (`p1, p2, p3, p4`) and 4 corresponding point in `ABAreference` SRS (`p1', p2', p3', p4'`) by solving following equation: 
    … …  
    7979}}} 
    8080 
    81 Then, initial volume `AtlasAnnotation25.sva` is transformed using '''M'''' and the resulting volume is used by the 3dBAR parser to create CAF dataset. 
     81Then, initial volume from `AtlasAnnotation25.sva` is transformed using '''M'''' and the resulting volume is used by the 3dBAR parser to create CAF dataset. 
    8282 
    8383Below you may find comparison of brain outlines created using raw volume (dark gray) and volume after transformation (light gray): 
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