intraSubj_normPutamen

purpose
usage
examples

Purpose:

This program is used to do INTRA-SUBJECT normalization, based on the intensities in the "PUTAMEN". It allows equating either the mean only, or the first two moments of each of the probabilistically defined structures of interest to the first (two) moment(s) of the signal over the "putamen".

Usage:

intraSubj_normPutamen Which_normalization Data_in.img prob_atlas.img Data_norm_out.img

Where the following definitions are used:
Which_normalization Which_normalization=1, for equalizing the means only, and Which_normalization=2 for equalizing the first two moments data_in.img The file containing the raw data whose intensities will be perturbed prob_atlas.img The file containing the probabilistic atlas (lobes9_diff_intens.img) Data_norm_out.img The output of the normalization (intrasubject rescaled data_in).

Examples:

./intraSubj_normPutamen.out 1 pet1.img lobes9_diff_intens.img pet1_normlz_putamen.img

This command will transform the intensity level of "pet1.img" so that the new 9 probabilistic structures of interest, defined in the atlas "lobes9_diff_intens.img", have the same mean as the mean of the putamen. Note that the above example represents a single UNIX command-line.

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