pymvpa2-ttest1

Simple t-test routine

Usage

pymvpa2 ttest [--version] [-h] -i DATASET [DATASET ...] [-m MASK] -o OUTPUT [-c CHANCE_LEVEL] [-s t,z,p] [-a greater,less,two-sided] [--isample ISAMPLE] t-test across multiple volumes against some chance level

Overview

This is a rudimentary way to perform fixed-effect significance test across subjects on e.g. searchlight results maps.

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.

-i DATASET [DATASET ...], --input DATASET [DATASET ...]: path(s) to one or more PyMVPA dataset files. All datasets will be merged into a single dataset (vstack'ed) in order of specification. In some cases this option may need to be specified more than once if multiple, but separate, input datasets are required.

-m MASK, --mask MASK: single mask item

-o OUTPUT, --output OUTPUT: output filename ('.hdf5' extension is added automatically if necessary).

-c CHANCE_LEVEL, --chance-level CHANCE_LEVEL: chance level performance

-s {t,z,p}, --stat {t,z,p}: Store corresponding statistic, e.g. z-value corresponding to the original t-value

-a {greater,less,two-sided}, --alternative {greater,less,two-sided}: Which tail of the distribution 'interesting' values belong to. E.g. if values are accuracies, it would be the 'greater', if errors -- the 'less'

--isample ISAMPLE: In case of multi sample dataset, which sample to extract to run the ttest on