FslSlicetimer

FslSlicetimer is a GUI wrapper for slicetimer tool. Slicetimer is a pre-processing tool designed to correct for sampling offsets inherent in slice-wise EPI acquisition sequences.

For more information about the FSL package, see the FSL(FMRIB Software Library) homepage.
FSL documentation for slicetimer.
Man page to the slicetimer application.

Invocation

java FslSlicetimer

java GlobalDesktop
java GlobalWorkbench
java FslToolChest

FslSlicetimer window

Information to be entered

• Input file
  filename of input timeseries
• Output file
  specify filename for corrected timeseries
• Options...
  Optional parameters
  • TR(s)
    Specify TR (repeat time) in seconds
  • Direction
    Direction of slice acquisition (default is z)
  • Slice Order Options
    • Use reversed acquistion order
      use reversed acquistion order (count from the last slice back)
    • Use interleaved acquistion order
      use interleaved acquistion order
    • Use slice timings file
      specify location of a single-column text file containing specific timing offsets for each slice
    • Use slice order file
      specify location of a single-column text file containing custom ordering of slices (first slice is referred to as 1 not 0).
• Verbose output
  use verbose output

• Menubar
• Toolbar
• Output window