feat FSL group analysis

Created: 2009-01-28 17:25:34 Last updated: 2009-01-28 17:36:07

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This workflow is to be run on results obtained from this one (couldn't manage to find a clean solution for merging those two in Scufl).

Processor "feat_group":

1. builds the experiment intput (design) file from template and input parameters

2. calls feat FSL

Processor "roi" reads activation maps produced by feat_group, extract a region of interest and compute the mean, stdev, max and min activation within it.

Here is a sample input in VBrowser's XML dialect.

Below is detailed the meaning of input parameters.

<h1>Files to be swept on (thus iterated with a cross pdct)</h1>

* designFile_template: template for input design file.

* region_of_interest: binary mask of the ROI in .nii.gz format

<h1>Analysis-related files (to be combined with a dot)</h1>

* feat_files{1-11}: output of feat individual analysis for patient 1 to 11. Archive in tgz format.

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Workflow Components

Inputs (13)

Name	Description
feat_files_1
feat_files_2
feat_files_3
feat_files_4
feat_files_5
feat_files_6
feat_files_7
feat_files_8
feat_files_9
feat_files_10
feat_files_11
designFile_template
region_of_interest

Processors (6)

Name	Type	Description
empty	stringconstant
feat_group_description	stringconstant
roi_stats_description	stringconstant
convertString	beanshell
roi_stats	arbitrarywsdl	Service definition of function ns__GASWexecution
feat_group	arbitrarywsdl	Service definition of function ns__GASWexecution

Beanshells (1)

Name	Description	Inputs	Outputs
convertString		input	output

Outputs (4)

Name	Description
fmri_outputdir
mean
max
stdev

Links (31)

Source	Sink
designFile_template	feat_group:input11
feat_files_1	feat_group:input0
feat_files_10	feat_group:input9
feat_files_11	feat_group:input10
feat_files_2	feat_group:input1
feat_files_3	feat_group:input2
feat_files_4	feat_group:input3
feat_files_5	feat_group:input4
feat_files_6	feat_group:input5
feat_files_7	feat_group:input6
feat_files_8	feat_group:input7
feat_files_9	feat_group:input8
convertString:output	roi_stats:input0
empty:value	feat_group:command-line
empty:value	feat_group:input12
empty:value	feat_group:input13
empty:value	feat_group:input14
empty:value	feat_group:input15
feat_files_1	feat_group:input0
empty:value	roi_stats:command-line
empty:value	roi_stats:input3
empty:value	roi_stats:input4
feat_group:result0	convertString:input
region_of_interest	roi_stats:input1
convertString:output	fmri_outputdir
convertString:output	roi_stats:input2
feat_group_description:value	feat_group:config-file
roi_stats:result0	mean
roi_stats:result1	max
roi_stats:result2	stdev
roi_stats_description:value	roi_stats:config-file

Coordinations (0)

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Taverna 1

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Glatard

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Glatard

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1428 downloads

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feat FSL group analysis

Created by Glatard on Wednesday 28 January 2009 17:25:34 (UTC)

Last edited by Glatard on Wednesday 28 January 2009 17:36:08 (UTC)

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