This shows you the differences between two versions of the page.
Both sides previous revision Previous revision Next revision | Previous revision | ||
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] |
||
---|---|---|---|
Line 4: | Line 4: | ||
* -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 |
+ | * -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==== | ||
Line 31: | Line 33: | ||
* 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. | ||
Line 62: | Line 64: | ||
* 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& | ||
+ | OFFROI: if FLAG& | ||
+ | IGNOREROI: if FLAG& | ||
+ | ONROI: if FLAG& | ||
+ | NLVLS: Number threshold levels to calculate separately (default=1, or 10 if FLAG& | ||
- | NLVLS: Number threshold levels to calculate separately | + | Note: If you want a PREFIX without specifying output file NAME you must include a MASKVAL |
If input is a Surface:\\ | If input is a Surface:\\ |