jvs:fscan:manual:chapter2:roistats
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jvs:fscan:manual:chapter2:roistats [2015/06/06 19:42] – voyvodic | jvs:fscan:manual:chapter2:roistats [2023/10/18 17:58] – [-roi stats] voyvodic | ||
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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 |
+ | * -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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* 0100 - report ROI volumes in mm3 (voxel count X voxel volume) | * 0100 - report ROI volumes in mm3 (voxel count X voxel volume) | ||
* 0200 - include ROI's with only zero values (usually ignored) | * 0200 - include ROI's with only zero values (usually ignored) | ||
+ | * 0400 - weight average by overlay map values | ||
+ | * 01000 - ignore thresholds (default: use threshold if active) | ||
+ | * 02000 - calculate cycle-to-cycle variations (not with 010000 option) | ||
+ | * 04000 - binary mask; values above threshold are ON (default if no REFIMAGE) | ||
+ | * 010000 - threshhold curves; calculate stats for 10 different threshold values (see THRESHOLD note) | ||
+ | * 020000 - include negative values | ||
+ | * 040000 - show only non-zero values, not total voxel counts | ||
+ | * 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. | ||
+ | If OFFROI is non-zero this will generate ROC curves. | ||
+ | If IGNOREROI is non-zero, REFIMAGE voxels with that value are ignored. | ||
+ | If ONROI is non-zero, only REFIMAGE voxels with that value are included. | ||
SHOWFLAG - Report generation flags | SHOWFLAG - Report generation flags | ||
* 1 - tab-separated columns in text output (default is space-separated) | * 1 - tab-separated columns in text output (default is space-separated) | ||
* 2 - comma-separated columns in text output | * 2 - comma-separated columns in text output | ||
+ | * 3 - use space as separator | ||
+ | * 4 - do not write out stats (no stats file) | ||
+ | * 020 - include ROIs with 0 values in report | ||
* 0100 - save as XML text file | * 0100 - save as XML text file | ||
- | * 0200 - save as tab-delimited | + | * 0200 - save as non-XML text file |
+ | * 0300 - print in table format; lines identified by prefix | ||
* 0400 - plot ref time series | * 0400 - plot ref time series | ||
* 01000 - save as ref time series | * 01000 - save as ref time series | ||
* 02000 - generate AMPLE statistics | * 02000 - generate AMPLE statistics | ||
- | * 04000 - ignore thresholds | + | * 04000 - print stats to 4 decimal points |
- | * 010000 - Watch flag (?) | + | * 010000 - show XYZ locs in ROOM coordinates) |
+ | * 020000 - show XYZ locs in Talairach coords | ||
+ | * 040000 - put format ID on each line | ||
+ | * 0100000 - no output | ||
| | ||
MODE | MODE | ||
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**See Also:**\\ | **See Also:**\\ | ||
- | [[jvs: | + | [[jvs: |
[[jvs: | [[jvs: | ||
[[jvs: | [[jvs: |
jvs/fscan/manual/chapter2/roistats.txt · Last modified: 2024/06/21 15:44 by 127.0.0.1