mincmorph(1)

Usage

mincmorph [options] <in.mnc> <out.mnc>

Command-specific options: General options:

`-verbose:`	be verbose
`-clobber:`	clobber existing files

Outfile Options

`-filetype:`	Use data type of the input file.
`-byte:`	Write out byte data.
`-short:`	Write out short integer data. (Default)
`-int:`	Write out long integer data.
`-float:`	Write out single-precision data.
`-double:`	Write out double-precision data.
`-signed:`	Write signed integer data.
`-unsigned:`	Write unsigned integer data.

Kernel Options

`-2D04:`	Use a 2D 4-connectivity kernel.
`-2D08:`	Use a 2D 8-connectivity kernel.
`-3D06:`	Use a 3D 6-connectivity kernel. (default)
`-3D26:`	Use a 3D 26-connectivity kernel.
`-kernel:`	<kernel.kern> read in a custom kernel file

Morphology Options

`-floor:`	lowwer value for binarising or clamping
	Default value: `-1`.79769e+308
`-ceil:`	upper value for binarising or clamping (incl)
	Default value: 1.79769e+308
`-range:`	range for binarising or clamping (incl)
	Default value: `-1`.79769e+308 1.79769e+308
`-foreground:`	foreground value
	Default value: 1
`-background:`	background value
	Default value: 0

`-binarise:`	binarise volume using the input range
`-clamp:`	clamp volume using the input range
`-pad:`	pad volume with respect to the current kernel (`-background` to specify value)
`-erosion:`	do a single erosion
`-dilation:`	do a single dilation
`-median_dilation:`	do a single median dilation (note: this is not a median filter!)
`-open:`	open: dilation(erosion(X))
`-close:`	close: erosion(dilation(X))
`-lowpass:`	lowpass filter: close(open(X))
`-highpass:`	highpass filter: X - lowpass(X)
`-convolve:`	convolve file with kernel
`-distance:`	distance transform
`-group:`	label groups in ascending order

: B[floor:ceil:fg:bg] - binarise in the range, using foreground and background K[floor:ceil:bg] - clamp between the specified range. Set other voxels to 'bg' (default: 0) P[bg] - pad volume with respect to the current kernel using 'bg' (default: 0) E - erosion D - dilation M - median dilation O - open C - close L - lowpass filter H - highpass filter X - convolve F - distance transform (binary input only - not checked) G - Label the groups in the volume in ascending order R[TYPE|file.kern] - (2D04|2D08|3D06|3D26) or read in a kernel file W[file.mnc] - write out current results I[cmp.mnc] - local xcorr between current file and cmp.mnc Default: "B"

`-help:`	Print summary of command-line options and abort
`-version:`	Print version number of program and exit
	mincmorph `-help`

Unchanged in 3 releases since Debian 11 (Bullseye).