Usage:
@DiceMetric <-base BASE> <-dsets DSET1 [DSET2 ...]>
[max_N_roi MAX_ROI]
[-keep_tmp]
Computes Dice Metric between BASE, and each of DSET volumes
Mandatory parameters:
<-base BASE>: Name of base (reference) segmentation
<-dsets DSET1 [DSET2 ...]>: Data sets for which the Dice Metric with
BASE is computed.
This option is to be the last on the command
line.
NOTE: A lazy usage would be:
@DiceMetric BASE DSET
Optional parameters:
[-save_match] : Save volume showing BASE*equals(BASE,DSET)
[-save_diff ] : Save volume showing BASE*(1-equals(BASE,DSET))
These two options are off by default. The output filenames
are formed this way:
PATH_DSET/PREFIX_BASE.EQ.PREFIX_DSET
PATH_DSET/PREFIX_BASE.DF.PREFIX_DSET
[-max_N_roi MAX_ROI]: The maximum possible roi index. Default is 12
or based on LTFILE if specified
[-labeltable LTFILE]: If given, the labeltable is used to set the
default MAX_ROI parameter
Also, this option forces an output for each
key in the LTFILE
[-forceoutput LTFILE]: If given force output for each class in LTFILE
[-do_not_mask_by_base]: Do not mask dset by step(base) before computing
Dice coefficient. This is the default behaviour
for backward compatibility.
[-mask_by_base]: Mask dset by the step(base) before computing
Dice coefficient. With this option,
Voxels that are 0 in the base dataset are not
considered in the computations.
[-prefix PREFIX]: Use PREFIX for the output table.
Default is separate results for each dset to stdout
[-ignore_bad]: Warn if encountering bad scenarios, but do not create
a zero entry. You should check for the cause of the
warnings to be sure they are OK to ignore
[-keep_tmp]: Keep temporary files for debugging. Note that you should
delete temporary files before rerunning the script.
[-echo] : set echo
Ziad Saad (saadz@mail.nih.gov)
SSCC/NIMH/ National Institutes of Health, Bethesda Maryland
