.TH overlap "1" "Jan 25 2019" "CMTK 3.3.1p1" "The Computational Morphometry Toolkit"
.SH NAME
overlap \- Overlap computation
.SH SYNOPSIS
overlap [options] image0 image1 [image2 ...]
.SH DESCRIPTION
Compute overlap measures between two or more images
.SH OPTIONS
.SS Global Toolkit Options (these are shared by all CMTK tools)
.TP 5
\fB\-\-help\fR
Write list of basic command line options to standard output.
.TP 5
\fB\-\-help-all\fR
Write complete list of basic and advanced command line options to standard output.
.TP 5
\fB\-\-wiki\fR
Write list of command line options to standard output in MediaWiki markup.
.TP 5
\fB\-\-man\fR
Write man page source in 'nroff' markup to standard output.
.TP 5
\fB\-\-version\fR
Write toolkit version to standard output.
.TP 5
\fB\-\-echo\fR
Write the current command line to standard output.
.TP 5
\fB\-\-verbose-level\fR \fI<integer>\fR
Set verbosity level.
.TP 5
\fB\-\-verbose\fR, \fB\-v\fR
Increment verbosity level by 1 (deprecated; supported for backward compatibility).
.TP 5
\fB\-\-threads\fR \fI<integer>\fR
Set maximum number of parallel threads (for POSIX threads and OpenMP).
.SS Main Options
.TP 5
\fB\-\-pad-in\fR \fI<double>\fR, \fB\-p\fR \fI<double>\fR
Define padding value for input images
.B [Default: disabled]
.TP 5
\fB\-\-mask\fR \fI<string>\fR, \fB\-m\fR \fI<string>\fR
Mask file for optional region-based analysis
.B [Default: NONE]
.TP 5
\fB\-\-num-labels\fR \fI<integer>\fR, \fB\-N\fR \fI<integer>\fR
Number of label values [default: autodetect]
.B [Default: 0]
.TP 5
\fB\-\-first-label\fR \fI<integer>\fR, \fB\-f\fR \fI<integer>\fR
Index of first label value [default: 0]; labels below this one are ignored
.B [Default: 0]
.TP 5
\fB\-\-by-label\fR
Analysis by label, i.e., separately for each label in given (detected) range
.SH AUTHORS
Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko
.SH LICENSE
http://www.fsf.org/licensing/licenses/gpl.html
.SH BUGS
Report bugs at http://nitrc.org/projects/cmtk/
.SH ACKNOWLEDGMENTS
CMTK is developed with support from the NIAAA under Grant AA021697, National Consortium on Alcohol and Neurodevelopment in Adolescence (N-CANDA): Data Integration Component. From April 2009 through September 2011, CMTK development and maintenance was supported by the NIBIB under Grant EB008381.