Niscontrast

Niscontrast performs post-hoc or focused contrast tests on neuroimaging data.

Invocation

java Niscontrast

Niscontrast window

Information to be entered

• Design file
  Text file with design levels and corresponding image files. See the man page for niscontrast (the command-line program) for important limitations on the format of the design file.
• Output directory
  Where the output images will be placed.
• Type of analysis
  Choose whether to perform a focused or a post-hoc analysis. This affects whether an ROI image is needed or not, and changes the meaning of the threshold parameter.
• ROI image file
  ROI (or Fmap) image file to process for post-hoc analysis. This file is mandatory when performing a post-hoc analysis, but it is not necessary when performing a focused contrast.
• Threshold
  Only performs contrast on voxels above threshold. In post-hoc analysis, this relates to the input image and is used to set a significance threshold. In focused contrasts, this relates to the raw functional data and provides a way of skipping background voxels to speed up analysis.
• Contrast test
  Contrast test to perform. See the man page for niscontrast for more information.
• Output stem
  String to use as the base for output image names. The prefix .post will be appended to this stem.
• Verbose mode
  Checking this will print out each slice number as it is processed as well as how many pixels are completed. At the end, it will print out the names of the images written out.

• Menubar
• Toolbar
• Output window