Tools

These tools operate under the umbrella of SPM the software suite, and are made freely available to the neuroimaging community under the GNU General Public License. 

Tested with SPM5 (rev. 1807) and SPM8 (rev. 3958), both running Matlab R2009a. The Matlab "stats" toolbox is required.

When citing any of these tools, please reference tools.robjellis.net.

  • ethr: extent thresholds for conjunctions
  • imcalc: custom SPM image calculations with batch functionality
  • oclt: optimized cluster-level thresholds for random field theory
  • slbt: second-level binomial thresholding
  • vis: visualized statistics toolbox


Visualized Statistics toolbox (vis)

Statistic plots for functional or structural images (.img / .nii):

(1) Histogram outlines
 (2) surface plots
 (3) scatter, quantile-quantile, or Bland-Altman plots

Download | Documentation | last update 2012.01.21

(cross-listed at NITRC and SPM)


SPM batch image calculator (imcalc)

A collection of functions with batch functionality for SPM:

(1) binarizing: non-zero voxels or unique thresholds
 (2) pairwise operations: add, subtract, avg, min, max ...
 (3) sign flip
 (4) x-flip
 (5) T-to-Z transform

Download | Documentation | last update 2012.01.29

(cross-listed at NITRC)


 

Extent thresholds for Conjunctions (ethr)

A redefinition of RFT-derived extent thresholds for conjunction analysis.

Under development.




Second-level Binomial Thresholding (slbt)

Novel FWE and FDR thresholds derived via application of a binomial test to assess inter-subject agreement.

Under development.