MM.cfg

<Analcfg deftype="typ.xml">
<variable>
<start>
	<ProgType>choice</ProgType>
	<prompt>startup ...</prompt>
	<description>
	MULTIVARIATE METHODS is a package for fMRI/PET data analysis|
	developed by the Models and Data Analysis group at SHFJ/CEA|
    Main Author : Ferath Kherif. Other : JB Poline|
       This is a ALPHA VERSION |
       Please do not distribute and redirect requests for the toolbox to|
       us. For bugs, remarks, additions, etc, please contact jb at|
       poline@shfj.cea.fr. Some of the ideas implemented in the MM toolbox|
       have not yet been published. Please refrain from publishing the|
       original ideas that can be found here ... If you are using this|
       material for publication, please see with us how you can|
       acknowledge our work.
	</description>
	<input>
		<label>Results|{Compute}</label>
		<prompt>Show  previous results  or launch new analysis</prompt>
	</input>

</start>

<typeanal>
	<ProgType>choice</ProgType>
	<prompt>start analysis ...</prompt>
	<description>
	Choose the number of space domains (with identical time domains) for this analysis|
	This corresponds to the number of SPM analyses that have previously|
	been done and that will be included in the multivariate computations|
	(e.g. this number is 1 for fixed effect analysis - and in fact is generally 1 ...)
	</description>
	<input>
		<label>MLM|SVD</label>
		<prompt>type of analysis ?</prompt>
	</input>
</typeanal>

<god>
	<ProgType>dir</ProgType>
	<prompt>global subjects results ...</prompt>
	<description>
	'Select a directory. Results concerning this specific space domain '
	'will be saved in this directory                          ' 
	</description>
	<input>
		<prompt></prompt>
		
	</input>
</god>
<subjects>
<subject>
<iod>
	<ProgType>dir</ProgType>
	<prompt>global subjects results ...</prompt>
	<description>
	'Select a directory. Results concerning this specific space domain '
	'will be saved in this directory                          ' 
	</description>
	<input>
		<prompt></prompt>
		
	</input>
</iod>


<mod>
	<ProgType>file</ProgType>
	<prompt>Model setting...</prompt>
	<description>
	'Select a SPM.mat matrix. This will define an experimental model '
	'that will be used to either remove some components of no interest '
	'or to reduce the data to the part that correlates with part of '
	'this model (projection onto some space of interest). '
	</description>
	<input>
		<prompt></prompt>
		<filter>SPM.mat</filter>
		<nb>1</nb>
		
	</input>
</mod>

<Image>
	<ProgType>file</ProgType>
	<prompt>Data Image...</prompt>
	<description>
	'choose the functional images to work on:'
	</description>
	<input>
		<prompt></prompt>
		<filter>img</filter>
	</input>
</Image>

</subject>
</subjects>

<neig>
	<ProgType>edit</ProgType>
	<prompt>EigenImage...</prompt>
	<description>
	'Choose the base-name for the output eigen image   ' 
	'Eigenimages will be named "base-name"NNNN where NNNN '
	'is the eigen image number' 
	</description>
	<input>
		<prompt>eigen image base name, </prompt>
		<etype>string</etype>
		<def>Eigen</def>
		
	</input>
</neig>


<leig>
	<ProgType>edit</ProgType>
	<prompt>EigenImage...</prompt>
	<description>
	''Choose the number of eigenimage to be saved.            '
	'You can choose a small number, 5 is generally enough to start with '
	'Type for example 1:5 to save the first 5 eigenimages '
	'You will be given later the possibillty to compute a new set of eigenimage.'
	</description>
	<input>
		<prompt>number of eigenImage?</prompt>
		<etype>evaluated</etype>
		<def>1:5</def>
		
	</input>
</leig>


<Pres>
	<ProgType>choice</ProgType>
	<prompt>residual space ...</prompt>
	<description>
	'Choose yes if you want to perform the analysis     '
	'in the residual space. This means that the part of the data that correlates '
	'with    X*c     where c is your contrast (possibly multidimensional) and '
	'X is the design matrix will be removed.'
	</description>
	<input>
		<label>Yes|No</label>
		<values>[1 0]</values>
		<prompt>Project in residual space ?</prompt>
	</input>
</Pres>

<filter>
	<ProgType>choice</ProgType>
	<prompt>Apply filter ...</prompt>
	<description>
	'Choose yes if you want to filter the data by the temporal '
	'filter that was used in the initial SPM analysis. In general '
	'this is adviced unless you know exatly what you''re doing because'
	'the model used to project the data onto a subspace has also been'
	'temporally filtered'
	</description>
	<input>
		<label>Yes|No</label>
		<values>[1 0]</values>
		<prompt>Filter ?</prompt>
	</input>
</filter>

<dvres>
	<ProgType>choice</ProgType>
	<prompt>normalize by residuals SD ...</prompt>
	<description>
	'choose yes if you want to normalize the data     '
	'voxel per voxel by the estimate of the residual standard deviation'
	</description>
	<input>
		<label>Yes|No</label>
		<values>[1 0]</values>
		<prompt>Normalize ?</prompt>
	</input>
</dvres>

</variable>

</Analcfg>