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reference:ft_omri_pipeline_nuisance [2018/08/23 14:43] (current)
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 +=====  FT_OMRI_PIPELINE_NUISANCE =====
 +
 +Note that this reference documentation is identical to the help that is displayed in MATLAB when you type "help ft_omri_pipeline_nuisance"​.
 +
 +<​html><​pre>​
 +  <a href=/​reference/​ft_omri_pipeline_nuisance><​font color=green>​FT_OMRI_PIPELINE_NUISANCE</​font></​a>​ implements an online fMRI pre-processing pipeline, including
 +  motion correction, slice time correction, smoothing, and regressing out nuisance
 +  regressors (constant, linear trend, motion estimates).
 +  ​
 +  Use as
 +    ft_omri_pipeline_nuisance(cfg)
 +  where cfg is a structure with configuration settings.
 + 
 +  Configuration options are
 +    cfg.input ​           = FieldTrip buffer containing raw scans (default '​buffer://​localhost:​1972'​)
 +    cfg.output ​          = where to write processed scans to     ​(default '​buffer://​localhost:​1973'​)
 +    cfg.numDummy ​        = how many scans to ignore initially ​   (default 4)
 +    cfg.smoothFWHM ​      = kernel width in mm (Full Width Half Maximum) for smoothing (default = 8)
 +    cfg.whichEcho ​       = which echo to process for multi-echo sequences (default = 1)
 +    cfg.correctMotion = flag indicating whether to correct motion artifacts (default = 1 = yes)
 +    cfg.correctSliceTime = flag indicating whether to correct slice timing (default = 1 = yes)
 +    cfg.numRegr ​         = number of nuisance regressors (1=constant term, 2=const+linear,​5=const,​linear+translation)
 +</​pre></​html>​