Man page - mincmorph(1)
Packages contas this manual
- mincmath(1)
- mincview(1)
- minc_modify_header(1)
- xfmflip(1)
- mincwindow(1)
- mincexpand(1)
- mnc2nii(1)
- mincstats(1)
- minccalc(1)
- mincpik(1)
- minctoecat(1)
- xfmconcat(1)
- worldtovoxel(1)
- minclookup(1)
- minctoraw(1)
- mincreshape(1)
- vff2mnc(1)
- mincaverage(1)
- invert_raw_image(1)
- minccopy(1)
- dcm2mnc(1)
- minccmp(1)
- mincinfo(1)
- mincresample(1)
- mincmorph(1)
- transformtags(1)
- mincmakevector(1)
- mincextract(1)
- mincedit(1)
- xfminvert(1)
- nii2mnc(1)
- mincconvert(1)
- xfm2def(1)
- rawtominc(1)
- voxeltoworld(1)
- ecattominc(1)
- mincdump(1)
- upet2mnc(1)
- minchistory(1)
- mincgen(1)
- mincmakescalar(1)
- mincblob(1)
- mincconcat(1)
- mincheader(1)
- mincsample(1)
- mincdiff(1)
Package: minc-tools
apt-get install minc-tools
apt-get install minc-tools
Manuals in package:
Documentations in package:
Manual
| MINCMORPH(1) | User Commands | MINCMORPH(1) |
NAME
mincmorph - MNI medical image format tools
SYNOPSIS
mincmorph [options] <in.mnc> <out.mnc>
DESCRIPTION
Command-specific options: General options:
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
Single morphological operations:
- -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
Successive morphological operations:
- -successive:
- Successive operations (Maximum: 100)
- 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"
Generic options for all commands:
- -help:
- Print summary of command-line options and abort
- -version:
- Print version number of program and exit
- mincmorph -help
| July 2020 | mincmorph 2.3.00 |