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added 3 commits May 3, 2021 10:53
The variable use_fwe_correction has been replaced with a multitest_correction variable which can be equal to 'none' for uncorrected threshold, 'FWE' for FWE correction adn 'FDR' for FDR correction
…se_topo_fdr Now there is another varialbe called use_topo_fwe that uses FWEc cluster size correction. Additionally, both FWEc and FDRc are returned to the user as output.
| @@ -574,23 +574,26 @@ class ThresholdInputSpec(SPMCommandInputSpec): | |||
| ) | |||
| stat_image = File(exists=True, desc="stat image", copyfile=False, mandatory=True) | |||
| contrast_index = traits.Int( | |||
| mandatory=True, desc="which contrast in the SPM.mat to use" | |||
| ) | |||
| use_fwe_correction = traits.Bool( | |||
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We have to keep the old options around so that we don't break existing workflows. You can deprecate it though (see https://nipype.readthedocs.io/en/latest/devel/interface_specs.html).
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Summary
I added the option of using FDR correction (at the voxel level) and the option to choose between FWEc and FDRc for the clustersize correction (only FDRc was present through use_topo_fdr) to the SPM interface
Fixes # .
List of changes proposed in this PR (pull-request)
Acknowledgment