Compute images statistics
mrstats [ options ] image
- image: the input image from which statistics will be computed.
- -output field (multiple uses permitted) output only the field specified. Multiple such options can be supplied if required. Choices are: mean, median, std, std_rv, min, max, count. Useful for use in scripts. Both std options refer to the unbiased (sample) standard deviation. For complex data, min, max and std are calculated separately for real and imaginary parts, std_rv is based on the real valued variance (equals sqrt of sum of variances of imaginary and real parts).
- -mask image only perform computation within the specified binary mask image.
- -ignorezero ignore zero values during statistics calculation
Additional options for mrstats¶
- -allvolumes generate statistics across all image volumes, rather than one set of statistics per image volume
- -info display information messages.
- -quiet do not display information messages or progress status; alternatively, this can be achieved by setting the MRTRIX_QUIET environment variable to a non-empty string.
- -debug display debugging messages.
- -force force overwrite of output files (caution: using the same file as input and output might cause unexpected behaviour).
- -nthreads number use this number of threads in multi-threaded applications (set to 0 to disable multi-threading).
- -config key value (multiple uses permitted) temporarily set the value of an MRtrix config file entry.
- -help display this information page and exit.
- -version display version information and exit.
Tournier, J.-D.; Smith, R. E.; Raffelt, D.; Tabbara, R.; Dhollander, T.; Pietsch, M.; Christiaens, D.; Jeurissen, B.; Yeh, C.-H. & Connelly, A. MRtrix3: A fast, flexible and open software framework for medical image processing and visualisation. NeuroImage, 2019, 202, 116137
Author: J-Donald Tournier (email@example.com)
Copyright: Copyright (c) 2008-2021 the MRtrix3 contributors.
This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
Covered Software is provided under this License on an “as is” basis, without warranty of any kind, either expressed, implied, or statutory, including, without limitation, warranties that the Covered Software is free of defects, merchantable, fit for a particular purpose or non-infringing. See the Mozilla Public License v. 2.0 for more details.
For more details, see http://www.mrtrix.org/.