histnifti
Description:
A command line tool to generate a histogram for a nifti file
Inputs:
A nifti file
Outputs:
A text file containing the histogram information
None
Usage:
Generates a histogram of the values in a NIFTI file.
usage: histnifti [-h] [--histlen LEN] [--minval MINVAL] [--maxval MAXVAL]
[--robustrange] [--transform] [--nozero]
[--nozerothresh THRESH] [--normhist] [--maskfile MASK]
[--nodisplay]
inputfile outputroot
Positional Arguments
- inputfile
The name of the input NIFTI file.
- outputroot
The root of the output file names.
Named Arguments
- --histlen
Set histogram length to LEN (default is to set automatically).
- --minval
Minimum bin value in histogram.
- --maxval
Maximum bin value in histogram.
- --robustrange
Set histogram limits to the data’s robust range (2nd to 98th percentile).
Default: False
- --transform
Replace data value with it’s percentile score.
Default: False
- --nozero
Do not include zero values in the histogram.
Default: False
- --nozerothresh
Absolute values less than this are considered zero. Default is 0.01.
Default: 0.01
- --normhist
Return a probability density instead of raw counts.
Default: False
- --maskfile
Only process voxels within the 3D mask MASK.
- --nodisplay
Do not display histogram.
Default: True