Changes between Version 1 and Version 2 of barSoftwareParsersAba


Ignore:
Timestamp:
08/15/11 20:22:13 (13 years ago)
Author:
pmajka
Comment:

--

Legend:

Unmodified
Added
Removed
Modified

  • barSoftwareParsersAba

    v1 v2  
    1 CAF dataset for Allen Reference Atlas  
     1CAF dataset for [http://mouse.brain-map.org/launchviewer.do Allen Reference Atlas]: 
    22 
    3 http://mouse.brain-map.org/launchviewer.do 
    4  
    5   1. Fetch AtlasAnnotation25.sva sparse volume file from http://community.brain-map.org/confluence/download/attachments/525267/data.zip?version=1 
    6  
     3  1. Fetch `AtlasAnnotation25.sva` sparse volume file from [http://community.brain-map.org/confluence/download/attachments/525267/data.zip?version=1 ABA Website]. 
    74  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 point defined 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`). 
    85 
    9   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. 
     6  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). 
    107 
    11   4. Tranformation may be calculates 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: 
     8  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: 
friendster counter