Man page for scatterΒΆ

NAME

pymvpa2-scatter - scatter plot PyMVPA datasets and/or brain volumes  

SYNOPSIS

pymvpa2 ,scatter /[,--version/] [,-h/] [,--volume VOLUME/] [,-m MASK_FILE/] [,--thresholds THRESHOLDS/] [,-M MASKED_OPACITY/] [,-u UNIQUE_POINTS/] [,-l {auto,same,per-axis}/] [,-x X_JITTER/] [,-y Y_JITTER/] [,-s STATS/] [,-o OUTPUT_IMG/] ,data /[,data /...]  

DESCRIPTION

Scatter plot PyMVPA datasets and/or brain volumes  

OPTIONS

--version
show program's version and license information and exit
-h, --help, --help-np
show this help message and exit. --help-np forcefully disables the use of a pager for displaying the help.
 

Options for scatterplot:

data
Nifti datasets to scatterplot
--volume VOLUME, -t VOLUME
If 4D image given which volume to plot. If 5D with rudimentary 4th, it gets removed. Default -- all
-m MASK_FILE, --mask-file MASK_FILE
Filename to use as a mask to decide which voxels to plot.
--thresholds THRESHOLDS
How to threshold the mask volume. Single value specifies lower threshold. Two comma-separated values specify exclusion range: e.g. '-3,3' would include all abs values >=3. '3,-3' would then include all abs values < 3
-M MASKED_OPACITY, --masked-opacity MASKED_OPACITY
Opacity at which plot masked-out points. Default is 0, i.e. when they are not plotted at all
-u UNIQUE_POINTS, --unique-points UNIQUE_POINTS
Plot those points which are present only in 1 of the volumes and not in the other along corresponding axis
-l {auto,same,per-axis}, --limits {auto,same,per-axis}
How to decide on limits for the axes. When 'auto' -- if data ranges overlap is more than 50% of the union range, 'same' is considered.
-x X_JITTER, --x-jitter X_JITTER
Half-width of the uniform jitter to add to x-coords. Useful for quantized (thus overlapping) data
-y Y_JITTER, --y-jitter Y_JITTER
Half-width of the uniform jitter to add to y-coords. Useful for quantized (thus overlapping) data
-s STATS, --stats STATS
Whether to print additional stats on the data
-o OUTPUT_IMG, --output-img OUTPUT_IMG
Where to output png of the scatterplot.

Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. Written by Michael Hanke & Yaroslav Halchenko, and numerous other contributors.