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VIEWS: 4 PAGES: 13

									SPM – introduction & orientation

     introduction to the SPM software
               and resources
                                   Data transformations
                                                              Statistical parametric map (SPM)
Image time-series         Kernel          Design matrix




  Realignment       Smoothing          General linear model


                                                                 Statistical       Gaussian
          Normalisation                                          inference        field theory




                            Template                                            p <0.05
                                        Parameter estimates
Introduction to the SPM5 software…
         SPM features…
• Spatial
      • realignment, spatial normalization,
        segmentation, coregistration, spatial
        smoothing
• Statistical
      • voxel by voxel statistical analysis
      • general linear model, generalized for
        temporal autocorrelation
      • random effects analyses
      • multiple comparisons: Corrected p-
        values from random field theory
      • plotting & results interrogation
• Utilities
      • image display, CheckReg, rendering,
        brain extraction, adjusted means,
        image algebra
• Implementation
      • “toolbox” of MATLAB® functions
      • GUI
• Availability
      • open source academic freeware
      • documented and informally
        supported
SPM GUI...
SPM resources…
        SPM architecture
• SPM
  – MatLab functions & scripts
         • basic “toolbox” functions • macro functions/scripts
         • GUI functions & i/o primitives
  – externally linked C-code
         • intensive operations • memory mapping
  – platform
         • MatLab on UNIX, Linux, Windows
• MatLab:
  – 4th Generation language
         • high level matrix based engineering maths language
         • basic data type is matrix • mathematical syntax
  – interpreted environment
  – graphics & GUI primitives provided
  – programming
        • scripts • functions (can compile) • objects • linked C/C++
SPM5b requirements…
                  Workstation
                   –   developed on Sun Solaris UNIX
                   –   Solaris, Linux & Windows supported
                   –   other UNIX
                   –   disk & memory…
                  Matlab 6.5 - 7.0
                   – no special “toolboxes” required
                  ANSII C Compiler
                   – to compile external C–mex routines
                   ready for Solaris, Linux, & Windows
                  Analyze / MINC format images
                   – conversion program
                   – extend SPM
                  Internet access
                   …for SPMweb & the email discussion list
    SPM Central
                  Plenty of time!
                    SPM documentation…
peer reviewed literature              SPM course notes,
                                      Human Brain Function &
                                            SPM manual




                              algorithm descriptions,
                              code annotations,
online help &                 pseudo-code
function descriptions
    SPM
   Online
Bibliography
      some    SPM internet resources…

• SPMweb site
                                                  SPM Central
   http://www.fil.ion.ucl.ac.uk/spm/

• SPM email discussion list
   http://www.fil.ion.ucl.ac.uk/spm/support/
   <spm@jiscmail.ac.uk>

• FIL neuroscience resources links
   http://www.fil.ion.ucl.ac.uk/resources.html

• SPM Wiki
   http://en.wikibooks.org/wiki/SPM


• MRC-CBU imagers
   http://www.mrc-cbu.cam.ac.uk/Imaging/Common/
          SPMweb…

                  • Introduction to SPM
                  • SPM distribution:
                    SPM99, SPM2, SPM5
                  • Documentation &
                    Bibliography
                  • SPM email discussion
                    list
                  • SPM short course
                  • Example data sets
                  • SPM extensions
http://www.fil.ion.ucl.ac.uk/spm/
                    SPM – email discussion list
 • spm@jiscmail.ac.uk
    – Web home page
       • http://www.fil.ion.ucl.ac.uk/spm/support/
       • Archives, archive searches, membership lists, instructions
    – Subscribe
       • http://www.jiscmail.ac.uk/
       • email jiscmail@jiscmail.ac.uk
           – join spm Firstname Lastname
    – Participate & learn
       • email spm@jiscmail.ac.uk
       • Monitored by SPMauthors
       • Usage queries, theoretical discussions,
         bug reports, patches, techniques, &c…


http://www.fil.ion.ucl.ac.uk/spm/support/                             spm@jiscmail.ac.uk

								
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