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jvs:fscan:manual:chapter2:roistats

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jvs:fscan:manual:chapter2:roistats [2023/10/18 17:46]
voyvodic [-roi stats]
jvs:fscan:manual:chapter2:roistats [2023/10/18 18:11] (current)
voyvodic [-roi stats]
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   * -roi MEAN flag   * -roi MEAN flag
   * -roi CORREL flag refROI binsize corrROI name thresh   * -roi CORREL flag refROI binsize corrROI name thresh
-  * -roi STATS refimage flag showflag mode name value nlevels level0 dlevel +  * -roi STATS refimage flag showflag [modename maskvalue [prefix prfxhdr] thresh nlevels level0 dlevel  
 +  * -roi STATS refimage flag showflag [mode] name maskvalue [prefix prfxhdr] thresh offroi ignoreroi onroi nlvls lvl0 dlvl 
 +  * -roi STATS refimage flag showflag [mode] name maskvalue [prefix prfxhdr] cycleleng cycle0 thresh
  
 ==== -roi stats==== ==== -roi stats====
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   * 020000 - include negative values   * 020000 - include negative values
   * 040000 - show only non-zero values, not total voxel counts   * 040000 - show only non-zero values, not total voxel counts
-  * 1000000 - threshold (?)+  * 1000000 - use threshold, even if THRESH is 0 (this is default if THRESH is non-zero)
 THRESHOLD: THRESH arg is the lowest threshold and stepsize. THRESHOLD: THRESH arg is the lowest threshold and stepsize.
 If OFFROI is non-zero this will generate ROC curves. If OFFROI is non-zero this will generate ROC curves.
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   * 4 - atlas areas   * 4 - atlas areas
   * 8 - threshold (can combine with 1-4)   * 8 - threshold (can combine with 1-4)
-  *  
-NAME - save stats in file NAME, if specified 
  
-VAL: If VAL > 0, only calculate for this mask value+NAME - save stats in file NAME, if specified \\ 
 +MASKVAL: If > 0, only calculate for this mask value \\ 
 +PREFIX: string prepended to each data line in report \\ 
 +PRFXHDR: string prepended to column header lines in report \\ 
 +THRESH: explicit threshold level (default is current image threshold, or if FLAG&010000 default is 0.5) \\ 
 +OFFROI: if FLAG&010000, OFFROI is ROI value indicating true-negative voxels \\ 
 +IGNOREROI: if FLAG&010000, ROI value to ignore when making ROC curves\\ 
 +ONROI: if FLAG&010000, ROI value indicating true-positive voxels for ROC curves \\ 
 +NLVLS: Number threshold levels to calculate separately (default=1, or 10 if FLAG&010000)\\
  
-NLVLSNumber threshold levels to calculate separately (default=1)+NoteIf you want a PREFIX without specifying output file NAME you must include a MASKVAL (0 for default) to avoid syntax confusion.
  
 If input is a Surface:\\ If input is a Surface:\\
jvs/fscan/manual/chapter2/roistats.1697651181.txt.gz · Last modified: 2023/10/18 17:46 by voyvodic